Changes between Initial Version and Version 3 of Ticket #16580


Ignore:
Timestamp:
Jan 8, 2025, 9:49:55 AM (11 months ago)
Author:
Eric Pettersen
Comment:

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  • Ticket #16580

    • Property Cc chimera-programmers added
    • Property Component Unassigned → Performance
    • Property Owner set to Tom Goddard
    • Property Platform → all
    • Property Project → ChimeraX
    • Property Status new → assigned
    • Property Summary ChimeraX bug report submission → Memory leak

  • Ticket #16580 – Description

    initial v3  
    716716MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    717717
    718 > isolde restrain distances "#1.2/B" templateAtoms "#2.2/B" perChain false
    719 > adjustForConfidence true useCoordinateAlignment false kappa 4.40 fallOff
    720 > 2.50 groupName "Reference Distance Restraints"
    721 
    722 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    723 chains... 
    724 [Repeated 1 time(s)]ISOLDE: Corrected atom nomenclature of 279 residues in
    725 model #2.2 to IUPAC-IUB standards. 
    726 Computing secondary structure 
    727 [Repeated 1 time(s)]
    728 
    729 > isolde restrain torsions #1.2/B templateResidues #2.2/B adjustForConfidence
    730 > true sidechains true springConstant 250.00 alpha 0.20
    731 
    732 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    733 chains... 
    734 [Repeated 1 time(s)]Computing secondary structure 
    735 [Repeated 1 time(s)]
    736 
    737 > isolde sim resume
    738 
    739 > select clear
    740 
    741 > cs 0.25
    742 
    743 > show #!2 models
    744 
    745 > hide #2.1 models
    746 
    747 > show #2.1 models
    748 
    749 > hide #!2 models
    750 
    751 > isolde sim stop
    752 
    753 Sim termination reason: None 
    754 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    755 chains... 
    756 ISOLDE: Corrected atom nomenclature of 47 residues in model #1.2 to IUPAC-IUB
    757 standards. 
    758 ISOLDE: stopped sim 
    759 
    760 > isolde sim start #1.2/B:930
    761 
    762 ISOLDE: started sim 
    763 
    764 > select clear
    765 
    766 > ra
    767 
    768 > select up
    769 
    770 24 atoms, 23 bonds, 1 residue, 1 model selected 
    771 
    772 > ra
    773 
    774 > select up
    775 
    776 20 atoms, 20 bonds, 1 residue, 1 model selected 
    777 
    778 > ra
    779 
    780 > select up
    781 
    782 14 atoms, 14 bonds, 1 residue, 2 models selected 
    783 
    784 > ra
    785 
    786 > select clear
    787 
    788 > isolde pepflip #1.2/B:930
    789 
    790 [Repeated 1 time(s)]
    791 
    792 > isolde sim stop
    793 
    794 Sim termination reason: None 
    795 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    796 chains... 
    797 ISOLDE: Corrected atom nomenclature of 1 residues in model #1.2 to IUPAC-IUB
    798 standards. 
    799 ISOLDE: stopped sim 
    800 Traceback (most recent call last): 
    801 File "/home/tcroll/.local/share/ChimeraX/1.9/lib/python3.11/site-
    802 packages/chimerax/isolde/problem_regions/ui.py", line 120, in update 
    803 clusters, noise = pa.problem_zones(m, restraint_types=restraint_types, 
    804 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    805 File "/home/tcroll/.local/share/ChimeraX/1.9/lib/python3.11/site-
    806 packages/chimerax/isolde/problem_regions/problems.py", line 71, in
    807 problem_zones 
    808 sites.extend(vm(structure, outliers_only=validation_outliers_only)) 
    809 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    810 File "/home/tcroll/.local/share/ChimeraX/1.9/lib/python3.11/site-
    811 packages/chimerax/isolde/problem_regions/problems.py", line 144, in
    812 get_protein_backbone_problems 
    813 problems = f(residues) 
    814 ^^^^^^^^^^^ 
    815 File "/home/tcroll/.local/share/ChimeraX/1.9/lib/python3.11/site-
    816 packages/chimerax/isolde/molobject.py", line 1057, in non_favored 
    817 scores, cases = self.validate(residues) 
    818 ^^^^^^^^^^^^^^^^^^^^^^^ 
    819 File "/home/tcroll/.local/share/ChimeraX/1.9/lib/python3.11/site-
    820 packages/chimerax/isolde/molobject.py", line 1107, in validate 
    821 return self._validate_by_residue(residues_or_ramas) 
    822 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 
    823 File "/home/tcroll/.local/share/ChimeraX/1.9/lib/python3.11/site-
    824 packages/chimerax/isolde/molobject.py", line 1124, in _validate_by_residue 
    825 f(self._c_pointer, residues._c_pointers, n, pointer(scores), pointer(cases)) 
    826 IndexError: No dihedral with that name is registered for this residue type! 
    827  
    828 IndexError: No dihedral with that name is registered for this residue type! 
    829  
    830 File "/home/tcroll/.local/share/ChimeraX/1.9/lib/python3.11/site-
    831 packages/chimerax/isolde/molobject.py", line 1124, in _validate_by_residue 
    832 f(self._c_pointer, residues._c_pointers, n, pointer(scores), pointer(cases)) 
    833  
    834 See log for complete Python traceback. 
    835  
    836 
    837 > ui tool show Shell
    838 
    839 0.00s - Debugger warning: It seems that frozen modules are being used, which
    840 may 
    841 0.00s - make the debugger miss breakpoints. Please pass -Xfrozen_modules=off 
    842 0.00s - to python to disable frozen modules. 
    843 0.00s - Note: Debugging will proceed. Set PYDEVD_DISABLE_FILE_VALIDATION=1 to
    844 disable this validation. 
    845 
    846 > isolde sim start
    847 > #1.2/A:624-626,628,643,898-899,905,1033,1036-1039,1043,1045-1048,1051,1077,1080-1081,1083-1187,1189-1194,1211-1213,1215-1248,1569,1573,1580,1591,1608,1612-1613,1677/B:894-895,898-900,902,905,1029,1032-1033,1036-1038,1040-1041,1045,1047-1048,1050-1056,1071-1194,1204,1211,1213-1240,1492-1495,1538-1542,1591,1612-1615,1740,1743/C:833,836-837,851-920,923/D:845-846,849-920,922-923
    848 
    849 ISOLDE: started sim 
    850 
    851 > select clear
    852 
    853 > select up
    854 
    855 19 atoms, 18 bonds, 1 residue, 1 model selected 
    856 
    857 > ra
    858 
    859 > select up
    860 
    861 19 atoms, 18 bonds, 1 residue, 1 model selected 
    862 
    863 > ra
    864 
    865 > show #!2 models
    866 
    867 > hide #!2 models
    868 
    869 > isolde sim pause
    870 
    871 > open 9ce3
    872 
    873 9ce3 title: 
    874 Structure of the TSC:WIPI3 lysosomal recruitment complex [more info...] 
    875  
    876 Chain information for 9ce3 #3 
    877 --- 
    878 Chain | Description | UniProt 
    879 A B | Isoform 4 of Tuberin | TSC2_HUMAN 2-1807 
    880 C D | Hamartin | TSC1_HUMAN 1-1164 
    881 E | TBC1 domain family member 7 | TBCD7_HUMAN 1-293 
    882 F | WD repeat domain phosphoinositide-interacting protein 3 | WIPI3_HUMAN 12-320 
    883 G H | Unknown fragment |   
    884  
    885 
    886 > select clear
    887 
    888 > style #!3#!1.2 stick
    889 
    890 Changed 105656 atom styles 
    891 
    892 > color byhetero
    893 
    894 > hide #!3 models
    895 
    896 > show #!2 models
    897 
    898 > matchmaker #2/D to #1/D
    899 
    900 Computing secondary structure 
    901 [Repeated 1 time(s)]  Parameters 
    902 --- 
    903 Chain pairing | bb 
    904 Alignment algorithm | Needleman-Wunsch 
    905 Similarity matrix | BLOSUM-62 
    906 SS fraction | 0.3 
    907 Gap open (HH/SS/other) | 18/18/6 
    908 Gap extend | 1 
    909 SS matrix |  |  | H | S | O 
    910 ---|---|---|--- 
    911 H | 6 | -9 | -6 
    912 S |  | 6 | -6 
    913 O |  |  | 4 
    914 Iteration cutoff | 2 
    915  
    916 Matchmaker 9ce3, chain D (#1.2) with AlphaFold TSC1_HUMAN chain D, chain D
    917 (#2.4), sequence alignment score = 5123.2 
    918 RMSD between 35 pruned atom pairs is 1.066 angstroms; (across all 581 pairs:
    919 80.244) 
    920  
    921 
    922 > hide #!2 models
    923 
    924 > select #1/D
    925 
    926 9679 atoms, 9756 bonds, 4 pseudobonds, 581 residues, 2 models selected 
    927 
    928 > ra
    929 
    930 > isolde sim resume
    931 
    932 > isolde cisflip #1.2/D:871
    933 
    934 > isolde pepflip #1.2/D:870
    935 
    936 > isolde sim stop discardTo start
    937 
    938 Sim termination reason: None 
    939 reverting to start 
    940 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    941 chains... 
    942 ISOLDE: stopped sim 
    943 
    944 > close
    945 
    946 > open 9ce3
    947 
    948 9ce3 title: 
    949 Structure of the TSC:WIPI3 lysosomal recruitment complex [more info...] 
    950  
    951 Chain information for 9ce3 #1 
    952 --- 
    953 Chain | Description | UniProt 
    954 A B | Isoform 4 of Tuberin | TSC2_HUMAN 2-1807 
    955 C D | Hamartin | TSC1_HUMAN 1-1164 
    956 E | TBC1 domain family member 7 | TBCD7_HUMAN 1-293 
    957 F | WD repeat domain phosphoinositide-interacting protein 3 | WIPI3_HUMAN 12-320 
    958 G H | Unknown fragment |   
    959  
    960 
    961 > log metadata #1
    962 
    963 Metadata for 9ce3 #1 
    964 --- 
    965 Title | Structure of the TSC:WIPI3 lysosomal recruitment complex 
    966 Citation | Bayly-Jones, C., Lupton, C.J., D'Andrea, L., Chang, Y.G., Jones, G.D., Steele, J.R., Venugopal, H., Schittenhelm, R.B., Halls, M.L., Ellisdon, A.M. (2024). Structure of the human TSC:WIPI3 lysosomal recruitment complex. Sci Adv, 10, eadr5807-eadr5807. PMID: 39565846. DOI: 10.1126/sciadv.adr5807 
    967 Source (natural) | Homo sapiens (human) 
    968 Gene source | Homo sapiens (human) 
    969 CryoEM Map | EMDB 45492 — open map 
    970 Experimental method | Electron microscopy 
    971 Resolution | 2.9Å 
    972  
    973 > open 45492 fromDatabase emdb
    974 
    975 Opened emdb 45492 as #2, grid size 560,560,560, pixel 1.17, shown at level
    976 0.05, step 4, values float32, fit PDB 9ce3 
    977 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    978 chains... 
    979 ISOLDE: Corrected atom nomenclature of 251 residues in model #1 to IUPAC-IUB
    980 standards. 
    981 9ce3 title: 
    982 Structure of the TSC:WIPI3 lysosomal recruitment complex [more info...] 
    983  
    984 Chain information for 9ce3 
    985 --- 
    986 Chain | Description | UniProt 
    987 1.2/A 1.2/B | Isoform 4 of Tuberin | TSC2_HUMAN 2-1807 
    988 1.2/C 1.2/D | Hamartin | TSC1_HUMAN 1-1164 
    989 1.2/E | TBC1 domain family member 7 | TBCD7_HUMAN 1-293 
    990 1.2/F | WD repeat domain phosphoinositide-interacting protein 3 | WIPI3_HUMAN 12-320 
    991 1.2/G 1.2/H | Unknown fragment |   
    992  
    993 
    994 > clipper associate #2 toModel #1
    995 
    996 Opened emdb 45492 as #1.1.1.1, grid size 560,560,560, pixel 1.17, shown at
    997 step 1, values float32 
    998 
    999 > ui tool show "Ramachandran Plot"
    1000 
    1001 > select clear
    1002 
    1003 > addh
    1004 
    1005 Summary of feedback from adding hydrogens to 9ce3 #1.2 
    1006 --- 
    1007 warnings | Not adding hydrogens to /B ARG 418 CB because it is missing heavy-atom bond partners 
    1008 Not adding hydrogens to /B ARG 537 CB because it is missing heavy-atom bond
    1009 partners 
    1010 Not adding hydrogens to /D SER 871 CB because it is missing heavy-atom bond
    1011 partners 
    1012 Not adding hydrogens to /G UNK 1 CB because it is missing heavy-atom bond
    1013 partners 
    1014 Not adding hydrogens to /G UNK 2 CB because it is missing heavy-atom bond
    1015 partners 
    1016 22 messages similar to the above omitted 
    1017 notes | Termini for 9ce3 (#1.2) chain A determined from SEQRES records 
    1018 Termini for 9ce3 (#1.2) chain B determined from SEQRES records 
    1019 Termini for 9ce3 (#1.2) chain C determined from SEQRES records 
    1020 Termini for 9ce3 (#1.2) chain D determined from SEQRES records 
    1021 Termini for 9ce3 (#1.2) chain E determined from SEQRES records 
    1022 3 messages similar to the above omitted 
    1023 Chain-initial residues that are actual N termini: /G UNK 1, /H UNK 1 
    1024 Chain-initial residues that are not actual N termini: /A GLN 35, /A PRO 542,
    1025 /A ALA 678, /A ASP 1004, /A ASN 1182, /A GLU 1490, /B THR 41, /B GLY 676, /B
    1026 PRO 928, /B ASP 1004, /B ASN 1182, /B GLU 1490, /C ASN 6, /C SER 598, /C LEU
    1027 652, /D ASN 6, /D THR 615, /D PRO 645, /D ILE 688, /D GLU 839, /E GLY 18, /F
    1028 HIS 11 
    1029 Chain-final residues that are actual C termini: /G UNK 12, /H UNK 12 
    1030 Chain-final residues that are not actual C termini: /A ARG 537, /A ARG 653, /A
    1031 SER 937, /A LEU 1083, /A ALA 1248, /A ASN 1762, /B GLU 652, /B SER 923, /B SER
    1032 937, /B LEU 1083, /B ARG 1240, /B ASN 1762, /C SER 276, /C ARG 622, /C LYS
    1033 971, /D ASP 265, /D GLY 633, /D SER 671, /D VAL 831, /D LEU 969, /E SER 293,
    1034 /F MET 315 
    1035 Missing OXT added to C-terminal residue /G UNK 12 
    1036 Missing OXT added to C-terminal residue /H UNK 12 
    1037 4513 hydrogen bonds 
    1038 Adding 'H' to /A GLN 35 
    1039 Adding 'H' to /A ALA 678 
    1040 Adding 'H' to /A ASP 1004 
    1041 Adding 'H' to /A ASN 1182 
    1042 Adding 'H' to /A GLU 1490 
    1043 14 messages similar to the above omitted 
    1044 /A ASN 1762 is not terminus, removing H atom from 'C' 
    1045 /B ASN 1762 is not terminus, removing H atom from 'C' 
    1046 /C LYS 971 is not terminus, removing H atom from 'C' 
    1047 /D LEU 969 is not terminus, removing H atom from 'C' 
    1048 /E SER 293 is not terminus, removing H atom from 'C' 
    1049 1 messages similar to the above omitted 
    1050 35482 hydrogens added 
    1051  
    1052 
    1053 > st
    1054 
    1055 > cs 0.25
    1056 
    1057 > alphafold match #1 trim false
    1058 
    1059 4 AlphaFold models found using UniProt identifiers: P49815 (chains A,B),
    1060 Q92574 (chains C,D), Q9P0N9 (chain E), Q5MNZ6 (chain F) 
    1061 
    1062 Cannot search short sequences less than 20 amino acids 
    1063 
    1064 No AlphaFold model with similar sequence for chains G,H 
    1065 
    1066 AlphaFold prediction matching 9ce3 
    1067 --- 
    1068 Chain| UniProt Id| UniProt Name| RMSD| Length| Seen| % Id 
    1069 A | P49815 | TSC2_HUMAN | 8.04 | 1807 | 1295 | 100   
    1070 B | P49815 | TSC2_HUMAN | 6.80 | 1807 | 1282 | 100   
    1071 F | Q5MNZ6 | WIPI3_HUMAN | 1.51 | 344 | 305 | 98   
    1072 C | Q92574 | TSC1_HUMAN | 88.43 | 1164 | 616 | 100   
    1073 D | Q92574 | TSC1_HUMAN | 80.29 | 1164 | 581 | 100   
    1074 E | Q9P0N9 | TBCD7_HUMAN | 0.76 | 293 | 276 | 100   
    1075  
    1076 Opened 6 AlphaFold models 
    1077 
    1078 > matchmaker #2.1 to #1.2
    1079 
    1080 Computing secondary structure 
    1081 [Repeated 1 time(s)]  Parameters 
    1082 --- 
    1083 Chain pairing | bb 
    1084 Alignment algorithm | Needleman-Wunsch 
    1085 Similarity matrix | BLOSUM-62 
    1086 SS fraction | 0.3 
    1087 Gap open (HH/SS/other) | 18/18/6 
    1088 Gap extend | 1 
    1089 SS matrix |  |  | H | S | O 
    1090 ---|---|---|--- 
    1091 H | 6 | -9 | -6 
    1092 S |  | 6 | -6 
    1093 O |  |  | 4 
    1094 Iteration cutoff | 2 
    1095  
    1096 Matchmaker 9ce3, chain B (#1.2) with AlphaFold TSC2_HUMAN chain A, chain A
    1097 (#2.1), sequence alignment score = 8146.5 
    1098 RMSD between 235 pruned atom pairs is 0.911 angstroms; (across all 1282 pairs:
    1099 6.796) 
    1100  
    1101 
    1102 > color #2.1 bychain
    1103 
    1104 > color #2.1 byhetero
    1105 
    1106 > color modify #2.1 hue + 50
    1107 
    1108 ISOLDE: attempting to load PAE matrix for model #2.1 from the AlphaFold-EBI
    1109 database. If this fails or you wish to use a different PAE matrix, use the
    1110 "Load PAE matrix" button in ISOLDE's reference model restraints widget. 
    1111 
    1112 > alphafold pae #2.1 uniprotId P49815 plot false
    1113 
    1114 Computing secondary structure 
    1115 [Repeated 1 time(s)]s1:
    1116 MDYKDDDDKAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNT.......................DSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1117 s2:
    1118 ........MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1119 s1:
    1120 MDYKDDDDKAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNT.......................DSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1121 s2:
    1122 ........MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1123 s1:
    1124 .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MAQQANVGELLAMLDSPMLGVRDDVTAVFKENLNSDRGPMLVNTLVDYYLETSSQPALHILTTLQEPHDKHLLDRINEYVGKAATRLSILSLLGHVIRLQPSWKHKLSQAPLLPSLLKCLKMDTDVVVLTTGVLVLITMLPMIPQSGKQHLLDFFDIFGRLSSWCLKKPGHVAEVYLVHLHASVYALFHRLYGMYPCNFVSFLRSHYSMKENLETFEEVVKPMMEHVRIHPELVTGSKDHELDPRRWKRLETHDVVIECAKISLDPTEASYEDGYSVSHQISARFPHRSADVTTSPYADTQNSYGCATSTPYSTSRLMLLNMPGQLPQTLSSPSTRLITEPPQATLWSPSMVCGMTTPPTSPGNVP.PDLSHPYS.....KVFGTTAGGKGTPLGTPATSPPPAPLCHSDDYVHISLPQATVTPPRKEERMDSARPCLHRQHHLLNDRGSEEPPGSKGSV.TLSDLPGFLGDLASEEDSIEKDKEEAAISRELS....EITTAEAEPVVPRGGFDSPFYR.DSLPGSQRKTHSAASSSQ...GASVNPEPLHSSLDKLGPDTPKQAFTPIDLPCGSADESPAGDREC...QTSLETSIFTPSPCKIPPPTRVGFGSGQPPPYDHLFEVALPKTAHHFVIRKTEELLKKAKGNTEEDGVPSTSPMEVLDRLIQQGADAHSKELNK...LPLPSKSVD............WTHFGGSPPSDEIRTLRDQLLLLHNQLLYERFKRQQHALRNRRLLRKVIKAAALEEHNAAMKDQLKLQEKDIQMWKVSLQKEQARYNQLQEQRDTMVTKLHSQIRQLQHDREEFYNQSQELQTKLEDCRNMIAELRIELKKANNKVCHTELLLSQVSQKLSNSESVQQQMEFLNRQLLVLGEVNELYLEQLQNKHSDTTKEVEMMKAAYRKELEKNRSHVLQQTQRLDTSQKRILELESHLAKKDHLLLEQKKYLEDVKLQARGQLQAAESRYEAQKRITQVFELEILDLYGRLEKDGLLKKLEEEKAEAAEAAEERLDCCNDGCSDSMVGHNEEASGHNGETKTPRPSSARGSSGSRGGGGSSSSSSELSTPEKPPHQRAGPFSSRWETTMGEASASIPTTVGSLPSSKSFLGMKARELFRNKSESQCDEDGMTSSLSESLKTELGKDLGVEAKIPLNLDGPHPSPPTPDSVGQLHIMDYNETHHEHSGTKLGPEQKLISEEDLNSAVDHHHHHH 
    1125 s2:
    1126 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNV..LLSFDDTP....EKDSFRARSTSLNERPKSLRIARPPKQGLN.NSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSA.....SLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPK.....RSPVGEFLLAGGRTKTWLVGNK.......LVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEA..PAKLESQAGQQVSRGARD.....RVRSMSGGHGLRVG....ALD.VPASQFLG.......SATSP....GPRTAPAAKPEKA.SAGTRVPVQEK....TNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPP............PLPRSNTVASFSSLYQSSCQGQLHRSVSWA.DSAVVMEEGSPGEVPVLVEPPG....LEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRG...IPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPE.LQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEG...PLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVER...DALKSRATASNAEKVPGINPSFVFLQLYH..SPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQS.NSELAILSNE..HGSYRYTEFLTGLGRLIE..LKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGE.DFKLGTIKGQFNFVHVIVTPLDYE.CNLVSLQCRKDMEGLVDTSVAKIVS..DRNLPFVARQMALHANMASQVHHSRSNPTDI....YPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV............................................................................................................................................................................................................................................ 
    1127 s1:
    1128 .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MAQQANVGELLAMLDSPMLGVRDDVTAVFKENLNSDRGPMLVNTLVDYYLETSSQPALHILTTLQEPHDKHLLDRINEYVGKAATRLSILSLLGHVIRLQPSWKHKLSQAPLLPSLLKCLKMDTDVVVLTTGVLVLITMLPMIPQSGKQHLLDFFDIFGRLSSWCLKKPGHVAEVYLVHLHASVYALFHRLYGMYPCNFVSFLRSHYSMKENLETFEEVVKPMMEHVRIHPELVTGSKDHELDPRRWKRLETHDVVIECAKISLDPTEASYEDGYSVSHQISARFPHRSADVTTSPYADTQNSYGCATSTPYSTSRLMLLNMPGQLPQTLSSPSTRLITEPPQATLWSPSMVCGMTTPPTSPGNVP.PDLSHPYS.....KVFGTTAGGKGTPLGTPATSPPPAPLCHSDDYVHISLPQATVTPPRKEERMDSARPCLHRQHHLLNDRGSEEPPGSKGSV.TLSDLPGFLGDLASEEDSIEKDKEEAAISRELS....EITTAEAEPVVPRGGFDSPFYR.DSLPGSQRKTHSAASSSQ...GASVNPEPLHSSLDKLGPDTPKQAFTPIDLPCGSADESPAGDREC...QTSLETSIFTPSPCKIPPPTRVGFGSGQPPPYDHLFEVALPKTAHHFVIRKTEELLKKAKGNTEEDGVPSTSPMEVLDRLIQQGADAHSKELNK.LPLPSKSVDW...THFGGSPPSDEI..........RTLRDQLLLLHNQLLYERFKRQQHALRNRRLLRKVIKAAALEEHNAAMKDQLKLQEKDIQMWKVSLQKEQARYNQLQEQRDTMVTKLHSQIRQLQHDREEFYNQSQELQTKLEDCRNMIAELRIELKKANNKVCHTELLLSQVSQKLSNSESVQQQMEFLNRQLLVLGEVNELYLEQLQNKH...SDTTKEVEMMKAAYRKELEKNRSHVLQQTQRLDTSQKRILELESHLAKKDHLLLEQKKYLEDVKLQARGQLQAAESRYEAQKRITQVFELEILDLYGRLEKDGLLKKLEEEKAEAAEAAEERLDCCNDGCSDSMVGHNEEASGHNGETKTPRPSSARGSSGSRGGGGSSSSSSELSTPEKPPHQRAGPFSSRWETTMGEASASIPTTVGSLPSSKSFLGMKARELFRNKSESQCDEDGMTSSLSESLKTELGKDLGVEAKIPLNLDGPHPSPPTPDSVGQLHIMDYNETHHEHSGTKLGPEQKLISEEDLNSAVDHHHHHH 
    1129 s2:
    1130 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNV..LLSFDDTP....EKDSFRARSTSLNERPKSLRIARPPKQGLN.NSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSA.....SLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPK.....RSPVGEFLLAGGRTKTWLVGNK.......LVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEA..PAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSAT.....................SPGPRTAPAAKPEKA.SAGTRVPVQEK....TNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPP............PLPRSNTVASFSSLYQSSCQGQLHRSVSWA.DSAVVMEEGSPGEVPVLVEPPG....LEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRG...IPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPE.LQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEG...PLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVER...DALKSRATASNAEKVPGINPSFVFLQLYH..SPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNE..HGSYRYTEFLTGLGRLIE..LKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGE.DFKLGTIKGQFNFVHVIVTPLDYE.CNLVSLQCRKDMEGLVDTSVAKIVS..DRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLP.LVHPPSHSKAPAQTPAEPTPGYEVG..QRKRLISSVEDFTEFV................................................................................................................................................................................................................................................ 
    1131 s1:
    1132 ...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MTEDSQRNFRSVYYEKVGF....RGVEEKKSLEILLKDDRLDTEKLCTFSQRFPLPSMYRALVWKVLLGILPPHHESHAKVMMYRKEQYLDVLHALKVVRFVSDATPQAEVYLRMYQLES.GKLPRSPSFPLEPDDEVFLAIAKAMEEMVEDSVDCYWITRRFVNQLNTKYRDSLPQLPKAFEQYLNLEDGRLLTHLRMCSAAPKLPYDLWFKRCFAGCLPESSLQRVWDKVVSGSCKILVFVAVEILLTFKIKVMALNSAEKITKFLENIPQDSSDAIVSKAIDLWHKHCGTPVHSSDYKDDDDK 
    1133 s2:
    1134 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGL.....VDTSVAKIVSDR.NLPFVARQMALHANMASQVHHSRSNP.TDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQT..PAEPTPGYEVGQRKRLISSVEDFTEFV..................................................................................................................................................... 
    1135 s1:
    1136 ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MHHHHHHGLLYAGFNQ.DHGCFACGMENGFRVYNT..DPLKEKEKQEFLEGGVGHVEMLFRCNYLALVGGGKKKVMIWDDLKKKTVIEIEFSTEVKAVKLRRDRIVVVLDSMIKVFTFTHNPHQLHVFETCYNPKGLCVLCPNSN....NSLLAFPGTHTGHVQLVDLASTEKPPVDIPAHEGVLSCIALNLQGT........RIATASEKGTLIRIFD.....TSSGHLIQELRRGSQAANIYCINFNQDASLICVSSDHGTVHIFAAEDPKSKWSFSKFQVPSGSPCICAFGTE.PNAVIAICADGSYYKFLFNPK....GECIRDVYAQFLEMTDDKL..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 
    1137 s2:
    1138 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRG.APEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIH.....RCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARL......PHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRS.......ISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1139 s1:
    1140 ...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................???????????? 
    1141 s2:
    1142 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1143 s1:
    1144 ...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................???????????? 
    1145 s2:
    1146 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1147 
    1148 > isolde restrain distances "#1.2/A" templateAtoms "#2.1/A" perChain false
    1149 > adjustForConfidence true useCoordinateAlignment false kappa 4.40 fallOff
    1150 > 2.50 groupName "Reference Distance Restraints"
    1151 
    1152 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    1153 chains... 
    1154 [Repeated 1 time(s)]ISOLDE: Corrected atom nomenclature of 279 residues in
    1155 model #2.1 to IUPAC-IUB standards. 
    1156 Computing secondary structure 
    1157 [Repeated 1 time(s)]
    1158 
    1159 > isolde restrain torsions #1.2/A templateResidues #2.1/A adjustForConfidence
    1160 > true sidechains true springConstant 250.00 alpha 0.20
    1161 
    1162 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    1163 chains... 
    1164 [Repeated 1 time(s)]Computing secondary structure 
    1165 [Repeated 1 time(s)]
    1166 
    1167 > matchmaker #2.1/A to #1.2/A
    1168 
    1169 Computing secondary structure 
    1170 [Repeated 1 time(s)]  Parameters 
    1171 --- 
    1172 Chain pairing | bb 
    1173 Alignment algorithm | Needleman-Wunsch 
    1174 Similarity matrix | BLOSUM-62 
    1175 SS fraction | 0.3 
    1176 Gap open (HH/SS/other) | 18/18/6 
    1177 Gap extend | 1 
    1178 SS matrix |  |  | H | S | O 
    1179 ---|---|---|--- 
    1180 H | 6 | -9 | -6 
    1181 S |  | 6 | -6 
    1182 O |  |  | 4 
    1183 Iteration cutoff | 2 
    1184  
    1185 Matchmaker 9ce3, chain A (#1.2) with AlphaFold TSC2_HUMAN chain A, chain A
    1186 (#2.1), sequence alignment score = 8122.5 
    1187 RMSD between 402 pruned atom pairs is 0.997 angstroms; (across all 1295 pairs:
    1188 8.043) 
    1189  
    1190 Computing secondary structure 
    1191 [Repeated 1 time(s)]s1:
    1192 MDYKDDDDKAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNT.......................DSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1193 s2:
    1194 ........MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1195 s1:
    1196 MDYKDDDDKAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNT.......................DSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1197 s2:
    1198 ........MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1199 s1:
    1200 .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MAQQANVGELLAMLDSPMLGVRDDVTAVFKENLNSDRGPMLVNTLVDYYLETSSQPALHILTTLQEPHDKHLLDRINEYVGKAATRLSILSLLGHVIRLQPSWKHKLSQAPLLPSLLKCLKMDTDVVVLTTGVLVLITMLPMIPQSGKQHLLDFFDIFGRLSSWCLKKPGHVAEVYLVHLHASVYALFHRLYGMYPCNFVSFLRSHYSMKENLETFEEVVKPMMEHVRIHPELVTGSKDHELDPRRWKRLETHDVVIECAKISLDPTEASYEDGYSVSHQISARFPHRSADVTTSPYADTQNSYGCATSTPYSTSRLMLLNMPGQLPQTLSSPSTRLITEPPQATLWSPSMVCGMTTPPTSPGNVP.PDLSHPYS.....KVFGTTAGGKGTPLGTPATSPPPAPLCHSDDYVHISLPQATVTPPRKEERMDSARPCLHRQHHLLNDRGSEEPPGSKGSV.TLSDLPGFLGDLASEEDSIEKDKEEAAISRELS....EITTAEAEPVVPRGGFDSPFYR.DSLPGSQRKTHSAASSSQ...GASVNPEPLHSSLDKLGPDTPKQAFTPIDLPCGSADESPAGDREC...QTSLETSIFTPSPCKIPPPTRVGFGSGQPPPYDHLFEVALPKTAHHFVIRKTEELLKKAKGNTEEDGVPSTSPMEVLDRLIQQGADAHSKELNK...LPLPSKSVD............WTHFGGSPPSDEIRTLRDQLLLLHNQLLYERFKRQQHALRNRRLLRKVIKAAALEEHNAAMKDQLKLQEKDIQMWKVSLQKEQARYNQLQEQRDTMVTKLHSQIRQLQHDREEFYNQSQELQTKLEDCRNMIAELRIELKKANNKVCHTELLLSQVSQKLSNSESVQQQMEFLNRQLLVLGEVNELYLEQLQNKHSDTTKEVEMMKAAYRKELEKNRSHVLQQTQRLDTSQKRILELESHLAKKDHLLLEQKKYLEDVKLQARGQLQAAESRYEAQKRITQVFELEILDLYGRLEKDGLLKKLEEEKAEAAEAAEERLDCCNDGCSDSMVGHNEEASGHNGETKTPRPSSARGSSGSRGGGGSSSSSSELSTPEKPPHQRAGPFSSRWETTMGEASASIPTTVGSLPSSKSFLGMKARELFRNKSESQCDEDGMTSSLSESLKTELGKDLGVEAKIPLNLDGPHPSPPTPDSVGQLHIMDYNETHHEHSGTKLGPEQKLISEEDLNSAVDHHHHHH 
    1201 s2:
    1202 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNV..LLSFDDTP....EKDSFRARSTSLNERPKSLRIARPPKQGLN.NSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSA.....SLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPK.....RSPVGEFLLAGGRTKTWLVGNK.......LVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEA..PAKLESQAGQQVSRGARD.....RVRSMSGGHGLRVG....ALD.VPASQFLG.......SATSP....GPRTAPAAKPEKA.SAGTRVPVQEK....TNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPP............PLPRSNTVASFSSLYQSSCQGQLHRSVSWA.DSAVVMEEGSPGEVPVLVEPPG....LEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRG...IPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPE.LQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEG...PLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVER...DALKSRATASNAEKVPGINPSFVFLQLYH..SPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQS.NSELAILSNE..HGSYRYTEFLTGLGRLIE..LKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGE.DFKLGTIKGQFNFVHVIVTPLDYE.CNLVSLQCRKDMEGLVDTSVAKIVS..DRNLPFVARQMALHANMASQVHHSRSNPTDI....YPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV............................................................................................................................................................................................................................................ 
    1203 s1:
    1204 .................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MAQQANVGELLAMLDSPMLGVRDDVTAVFKENLNSDRGPMLVNTLVDYYLETSSQPALHILTTLQEPHDKHLLDRINEYVGKAATRLSILSLLGHVIRLQPSWKHKLSQAPLLPSLLKCLKMDTDVVVLTTGVLVLITMLPMIPQSGKQHLLDFFDIFGRLSSWCLKKPGHVAEVYLVHLHASVYALFHRLYGMYPCNFVSFLRSHYSMKENLETFEEVVKPMMEHVRIHPELVTGSKDHELDPRRWKRLETHDVVIECAKISLDPTEASYEDGYSVSHQISARFPHRSADVTTSPYADTQNSYGCATSTPYSTSRLMLLNMPGQLPQTLSSPSTRLITEPPQATLWSPSMVCGMTTPPTSPGNVP.PDLSHPYS.....KVFGTTAGGKGTPLGTPATSPPPAPLCHSDDYVHISLPQATVTPPRKEERMDSARPCLHRQHHLLNDRGSEEPPGSKGSV.TLSDLPGFLGDLASEEDSIEKDKEEAAISRELS....EITTAEAEPVVPRGGFDSPFYR.DSLPGSQRKTHSAASSSQ...GASVNPEPLHSSLDKLGPDTPKQAFTPIDLPCGSADESPAGDREC...QTSLETSIFTPSPCKIPPPTRVGFGSGQPPPYDHLFEVALPKTAHHFVIRKTEELLKKAKGNTEEDGVPSTSPMEVLDRLIQQGADAHSKELNK.LPLPSKSVDW...THFGGSPPSDEI..........RTLRDQLLLLHNQLLYERFKRQQHALRNRRLLRKVIKAAALEEHNAAMKDQLKLQEKDIQMWKVSLQKEQARYNQLQEQRDTMVTKLHSQIRQLQHDREEFYNQSQELQTKLEDCRNMIAELRIELKKANNKVCHTELLLSQVSQKLSNSESVQQQMEFLNRQLLVLGEVNELYLEQLQNKH...SDTTKEVEMMKAAYRKELEKNRSHVLQQTQRLDTSQKRILELESHLAKKDHLLLEQKKYLEDVKLQARGQLQAAESRYEAQKRITQVFELEILDLYGRLEKDGLLKKLEEEKAEAAEAAEERLDCCNDGCSDSMVGHNEEASGHNGETKTPRPSSARGSSGSRGGGGSSSSSSELSTPEKPPHQRAGPFSSRWETTMGEASASIPTTVGSLPSSKSFLGMKARELFRNKSESQCDEDGMTSSLSESLKTELGKDLGVEAKIPLNLDGPHPSPPTPDSVGQLHIMDYNETHHEHSGTKLGPEQKLISEEDLNSAVDHHHHHH 
    1205 s2:
    1206 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNV..LLSFDDTP....EKDSFRARSTSLNERPKSLRIARPPKQGLN.NSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSA.....SLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPK.....RSPVGEFLLAGGRTKTWLVGNK.......LVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEA..PAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSAT.....................SPGPRTAPAAKPEKA.SAGTRVPVQEK....TNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPP............PLPRSNTVASFSSLYQSSCQGQLHRSVSWA.DSAVVMEEGSPGEVPVLVEPPG....LEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRG...IPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPE.LQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEG...PLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVER...DALKSRATASNAEKVPGINPSFVFLQLYH..SPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNE..HGSYRYTEFLTGLGRLIE..LKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGE.DFKLGTIKGQFNFVHVIVTPLDYE.CNLVSLQCRKDMEGLVDTSVAKIVS..DRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLP.LVHPPSHSKAPAQTPAEPTPGYEVG..QRKRLISSVEDFTEFV................................................................................................................................................................................................................................................ 
    1207 s1:
    1208 ...........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MTEDSQRNFRSVYYEKVGF....RGVEEKKSLEILLKDDRLDTEKLCTFSQRFPLPSMYRALVWKVLLGILPPHHESHAKVMMYRKEQYLDVLHALKVVRFVSDATPQAEVYLRMYQLES.GKLPRSPSFPLEPDDEVFLAIAKAMEEMVEDSVDCYWITRRFVNQLNTKYRDSLPQLPKAFEQYLNLEDGRLLTHLRMCSAAPKLPYDLWFKRCFAGCLPESSLQRVWDKVVSGSCKILVFVAVEILLTFKIKVMALNSAEKITKFLENIPQDSSDAIVSKAIDLWHKHCGTPVHSSDYKDDDDK 
    1209 s2:
    1210 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGL.....VDTSVAKIVSDR.NLPFVARQMALHANMASQVHHSRSNP.TDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQT..PAEPTPGYEVGQRKRLISSVEDFTEFV..................................................................................................................................................... 
    1211 s1:
    1212 ........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................MHHHHHHGLLYAGFNQ.DHGCFACGMENGFRVYNT..DPLKEKEKQEFLEGGVGHVEMLFRCNYLALVGGGKKKVMIWDDLKKKTVIEIEFSTEVKAVKLRRDRIVVVLDSMIKVFTFTHNPHQLHVFETCYNPKGLCVLCPNSN....NSLLAFPGTHTGHVQLVDLASTEKPPVDIPAHEGVLSCIALNLQGT........RIATASEKGTLIRIFD.....TSSGHLIQELRRGSQAANIYCINFNQDASLICVSSDHGTVHIFAAEDPKSKWSFSKFQVPSGSPCICAFGTE.PNAVIAICADGSYYKFLFNPK....GECIRDVYAQFLEMTDDKL..................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................... 
    1213 s2:
    1214 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRG.APEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIH.....RCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARL......PHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRS.......ISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1215 s1:
    1216 ...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................???????????? 
    1217 s2:
    1218 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1219 s1:
    1220 ...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................???????????? 
    1221 s2:
    1222 MAKPTSKDSGLKEKFKILLGLGTPRPNPRSAEGKQTEFIITAEILRELSMECGLNNRIRMIGQICEVAKTKKFEEHAVEALWKAVADLLQPERPLEARHAVLALLKAIVQGQGERLGVLRALFFKVIKDYPSNEDLHERLEVFKALTDNGRHITYLEEELADFVLQWMDVGLSSEFLLVLVNLVKFNSCYLDEYIARMVQMICLLCVRTASSVDIEVSLQVLDAVVCYNCLPAESLPLFIVTLCRTINVKELCEPCWKLMRNLLGTHLGHSAIYNMCHLMEDRAYMEDAPLLRGAVFFVGMALWGAHRLYSLRNSPTSVLPSFYQAMACPNEVVSYEIVLSITRLIKKYRKELQVVAWDILLNIIERLLQQLQTLDSPELRTIVHDLLTTVEELCDQNEFHGSQERYFELVERCADQRPESSLLNLISYRAQSIHPAKDGWIQNLQALMERFFRSESRGAVRIKVLDVLSFVLLINRQFYEEELINSVVISQLSHIPEDKDHQVRKLATQLLVDLAEGCHTHHFNSLLDIIEKVMARSLSPPPELEERDVAAYSASLEDVKTAVLGLLVILQTKLYTLPASHATRVYEMLVSHIQLHYKHSYTLPIASSIRLQAFDFLLLLRADSLHRLGLPNKDGVVRFSPYCVCDYMEPERGSEKKTSGPLSPPTGPPGPAPAGPAVRLGSVPYSLLFRVLLQCLKQESDWKVLKLVLGRLPESLRYKVLIFTSPCSVDQLCSALCSMLSGPKTLERLRGAPEGFSRTDLHLAVVPVLTALISYHNYLDKTKQREMVYCLEQGLIHRCASQCVVALSICSVEMPDIIIKALPVLVVKLTHISATASMAVPLLEFLSTLARLPHLYRNFAAEQYASVFAISLPYTNPSKFNQYIVCLAHHVIAMWFIRCRLPFRKDFVPFITKGLRSNVLLSFDDTPEKDSFRARSTSLNERPKSLRIARPPKQGLNNSPPVKEFKESSAAEAFRCRSISVSEHVVRSRIQTSLTSASLGSADENSVAQADDSLKNLHLELTETCLDMMARYVFSNFTAVPKRSPVGEFLLAGGRTKTWLVGNKLVTVTTSVGTGTRSLLGLDSGELQSGPESSSSPGVHVRQTKEAPAKLESQAGQQVSRGARDRVRSMSGGHGLRVGALDVPASQFLGSATSPGPRTAPAAKPEKASAGTRVPVQEKTNLAAYVPLLTQGWAEILVRRPTGNTSWLMSLENPLSPFSSDINNMPLQELSNALMAAERFKEHRDTALYKSLSVPAASTAKPPPLPRSNTVASFSSLYQSSCQGQLHRSVSWADSAVVMEEGSPGEVPVLVEPPGLEDVEAALGMDRRTDAYSRSSSVSSQEEKSLHAEELVGRGIPIERVVSSEGGRPSVDLSFQPSQPLSKSSSSPELQTLQDILGDPGDKADVGRLSPEVKARSQSGTLDGESAAWSASGEDSRGQPEGPLPSSSPRSPSGLRPRGYTISDSAPSRRGKRVERDALKSRATASNAEKVPGINPSFVFLQLYHSPFFGDESNKPILLPNESQSFERSVQLLDQIPSYDTHKIAVLYVGEGQSNSELAILSNEHGSYRYTEFLTGLGRLIELKDCQPDKVYLGGLDVCGEDGQFTYCWHDDIMQAVFHIATLMPTKDVDKHRCDKKRHLGNDFVSIVYNDSGEDFKLGTIKGQFNFVHVIVTPLDYECNLVSLQCRKDMEGLVDTSVAKIVSDRNLPFVARQMALHANMASQVHHSRSNPTDIYPSKWIARLRHIKRLRQRICEEAAYSNPSLPLVHPPSHSKAPAQTPAEPTPGYEVGQRKRLISSVEDFTEFV 
    1223 
    1224 > hide #!2 models
    1225 
    1226 > select #1/A
    1227 
    1228 20801 atoms, 21014 bonds, 5 pseudobonds, 1295 residues, 2 models selected 
    1229 
    1230 > isolde sim start #1.2/A
    1231 
    1232 ISOLDE: started sim 
    1233 
    1234 > select clear
    1235 
    1236 > select /A
    1237 
    1238 34901 atoms, 35414 bonds, 5 pseudobonds, 3102 residues, 3 models selected 
    1239 
    1240 > rd
    1241 
    1242 > select clear
    1243 
    1244 > select up
    1245 
    1246 22 atoms, 21 bonds, 1 residue, 1 model selected 
    1247 
    1248 > rt
    1249 
    1250 [Repeated 1 time(s)]
    1251 
    1252 > select /A
    1253 
    1254 34901 atoms, 35414 bonds, 5 pseudobonds, 3102 residues, 3 models selected 
    1255 
    1256 > ra
    1257 
    1258 > select clear
    1259 
    1260 > st
    1261 
    1262 [Repeated 3 time(s)]
    1263 
    1264 > isolde sim pause
    1265 
    1266 > st interp 5
    1267 
    1268 > st
    1269 
    1270 [Repeated 32 time(s)]
    1271 
    1272 > isolde sim resume
    1273 
    1274 > st
    1275 
    1276 [Repeated 58 time(s)]
    1277 
    1278 > select up
    1279 
    1280 12 atoms, 11 bonds, 1 residue, 2 models selected 
    1281 
    1282 > ra
    1283 
    1284 > isolde sim pause
    1285 
    1286 > sequence chain #1/A
    1287 
    1288 Alignment identifier is 1.2/A 
    1289 
    1290 > select #1.2/A:133
    1291 
    1292 14 atoms, 13 bonds, 1 residue, 1 model selected 
    1293 
    1294 > select #1.2/A:132-133
    1295 
    1296 25 atoms, 24 bonds, 2 residues, 1 model selected 
    1297 
    1298 > open 9ec3
    1299 
    1300 Fetching url http://files.rcsb.org/download/9ec3.cif failed: 
    1301 HTTP Error 404: Not Found 
    1302 
    1303 > open 9ce3
    1304 
    1305 9ce3 title: 
    1306 Structure of the TSC:WIPI3 lysosomal recruitment complex [more info...] 
    1307  
    1308 Chain information for 9ce3 #3 
    1309 --- 
    1310 Chain | Description | UniProt 
    1311 A B | Isoform 4 of Tuberin | TSC2_HUMAN 2-1807 
    1312 C D | Hamartin | TSC1_HUMAN 1-1164 
    1313 E | TBC1 domain family member 7 | TBCD7_HUMAN 1-293 
    1314 F | WD repeat domain phosphoinositide-interacting protein 3 | WIPI3_HUMAN 12-320 
    1315 G H | Unknown fragment |   
    1316  
    1317 
    1318 > select clear
    1319 
    1320 > style #!3#!1.2 stick
    1321 
    1322 Changed 105656 atom styles 
    1323 
    1324 > hide #!3 models
    1325 
    1326 > ra
    1327 
    1328 > isolde sim resume
    1329 
    1330 > ra
    1331 
    1332 > select up
    1333 
    1334 24 atoms, 23 bonds, 1 residue, 1 model selected 
    1335 
    1336 > ra
    1337 
    1338 > select up
    1339 
    1340 19 atoms, 18 bonds, 1 residue, 1 model selected 
    1341 
    1342 > ra
    1343 
    1344 [Repeated 1 time(s)]
    1345 
    1346 > select up
    1347 
    1348 7 atoms, 6 bonds, 1 residue, 2 models selected 
    1349 
    1350 > ra
    1351 
    1352 > isolde pepflip #1.2/A:172
    1353 
    1354 [Repeated 1 time(s)]
    1355 
    1356 > select up
    1357 
    1358 16 atoms, 15 bonds, 1 residue, 2 models selected 
    1359 
    1360 > ra
    1361 
    1362 > st
    1363 
    1364 [Repeated 1 time(s)]
    1365 
    1366 > isolde sim pause
    1367 
    1368 > st
    1369 
    1370 [Repeated 36 time(s)]
    1371 
    1372 > select #1/A
    1373 
    1374 20801 atoms, 21014 bonds, 5 pseudobonds, 1295 residues, 2 models selected 
    1375 
    1376 > isolde sim resume
    1377 
    1378 > rd
    1379 
    1380 [Repeated 1 time(s)]
    1381 
    1382 > select clear
    1383 
    1384 > st
    1385 
    1386 [Repeated 15 time(s)]
    1387 
    1388 > isolde sim pause
    1389 
    1390 > st
    1391 
    1392 [Repeated 57 time(s)]
    1393 
    1394 > isolde sim resume
    1395 
    1396 > ty
    1397 
    1398 Unknown command: ty 
    1399 
    1400 > rt
    1401 
    1402 > isolde sim pause
    1403 
    1404 > st
    1405 
    1406 [Repeated 7 time(s)]
    1407 
    1408 > isolde sim resume
    1409 
    1410 > isolde sim pause
    1411 
    1412 > st
    1413 
    1414 [Repeated 10 time(s)]
    1415 
    1416 > isolde sim resume
    1417 
    1418 > isolde sim pause
    1419 
    1420 > st
    1421 
    1422 [Repeated 9 time(s)]
    1423 
    1424 > rt
    1425 
    1426 > isolde sim resume
    1427 
    1428 > isolde sim pause
    1429 
    1430 > isolde sim resume
    1431 
    1432 > isolde sim pause
    1433 
    1434 > st
    1435 
    1436 > rt
    1437 
    1438 > isolde sim resume
    1439 
    1440 > isolde sim pause
    1441 
    1442 > st
    1443 
    1444 [Repeated 9 time(s)]
    1445 
    1446 > rt
    1447 
    1448 > isolde sim resume
    1449 
    1450 > isolde sim pause
    1451 
    1452 > st
    1453 
    1454 [Repeated 11 time(s)]
    1455 
    1456 > rt
    1457 
    1458 > isolde sim resume
    1459 
    1460 > st
    1461 
    1462 > isolde sim pause
    1463 
    1464 > st
    1465 
    1466 [Repeated 11 time(s)]
    1467 
    1468 > rt
    1469 
    1470 > isolde sim resume
    1471 
    1472 > isolde pepflip #1.2/A:310
    1473 
    1474 [Repeated 1 time(s)]
    1475 
    1476 > isolde sim pause
    1477 
    1478 > st
    1479 
    1480 [Repeated 20 time(s)]
    1481 
    1482 > isolde sim resume
    1483 
    1484 > isolde sim pause
    1485 
    1486 > st
    1487 
    1488 [Repeated 7 time(s)]
    1489 
    1490 > isolde sim resume
    1491 
    1492 > isolde sim pause
    1493 
    1494 > st
    1495 
    1496 [Repeated 1 time(s)]
    1497 
    1498 > isolde sim resume
    1499 
    1500 > isolde sim pause
    1501 
    1502 > st
    1503 
    1504 > isolde sim resume
    1505 
    1506 > isolde sim pause
    1507 
    1508 > select up
    1509 
    1510 11 atoms, 10 bonds, 1 residue, 2 models selected 
    1511 
    1512 > rt
    1513 
    1514 > isolde sim resume
    1515 
    1516 > rt
    1517 
    1518 > isolde sim pause
    1519 
    1520 > st
    1521 
    1522 [Repeated 1 time(s)]
    1523 
    1524 > isolde sim resume
    1525 
    1526 > select up
    1527 
    1528 24 atoms, 23 bonds, 1 residue, 1 model selected 
    1529 
    1530 > rt
    1531 
    1532 > isolde sim pause
    1533 
    1534 > st
    1535 
    1536 [Repeated 10 time(s)]
    1537 
    1538 > isolde sim resume
    1539 
    1540 > isolde sim pause
    1541 
    1542 > st
    1543 
    1544 [Repeated 17 time(s)]
    1545 
    1546 > isolde sim resume
    1547 
    1548 > isolde sim pause
    1549 
    1550 > st
    1551 
    1552 [Repeated 2 time(s)]
    1553 
    1554 > rt
    1555 
    1556 > isolde sim resume
    1557 
    1558 > isolde pepflip #1.2/A:377
    1559 
    1560 > isolde pepflip #1.2/A:376
    1561 
    1562 [Repeated 2 time(s)]
    1563 
    1564 > select up
    1565 
    1566 24 atoms, 23 bonds, 1 residue, 1 model selected 
    1567 
    1568 >
    1569 
    1570 Incomplete command: remotecontrol 
    1571 
    1572 > rt
    1573 
    1574 > isolde sim pause
    1575 
    1576 > st
    1577 
    1578 [Repeated 15 time(s)]
    1579 
    1580 > rt
    1581 
    1582 > isolde sim resume
    1583 
    1584 > isolde sim pause
    1585 
    1586 > st
    1587 
    1588 [Repeated 17 time(s)]
    1589 
    1590 > isolde sim resume
    1591 
    1592 > isolde sim pause
    1593 
    1594 > isolde sim resume
    1595 
    1596 > isolde sim pause
    1597 
    1598 > st
    1599 
    1600 [Repeated 3 time(s)]
    1601 
    1602 > rt
    1603 
    1604 > isolde sim resume
    1605 
    1606 > isolde sim pause
    1607 
    1608 > rt
    1609 
    1610 > st
    1611 
    1612 [Repeated 3 time(s)]
    1613 
    1614 > rt
    1615 
    1616 > isolde sim resume
    1617 
    1618 > isolde sim pause
    1619 
    1620 > st
    1621 
    1622 [Repeated 4 time(s)]
    1623 
    1624 > isolde sim resume
    1625 
    1626 > isolde sim pause
    1627 
    1628 > st
    1629 
    1630 [Repeated 11 time(s)]
    1631 
    1632 > rt
    1633 
    1634 > select clear
    1635 
    1636 > isolde sim resume
    1637 
    1638 > isolde sim pause
    1639 
    1640 > st
    1641 
    1642 [Repeated 10 time(s)]
    1643 
    1644 > rt
    1645 
    1646 > isolde sim resume
    1647 
    1648 > isolde sim pause
    1649 
    1650 > st
    1651 
    1652 [Repeated 1 time(s)]
    1653 
    1654 > isolde sim resume
    1655 
    1656 > isolde sim pause
    1657 
    1658 > st
    1659 
    1660 [Repeated 2 time(s)]
    1661 
    1662 > rt
    1663 
    1664 > isolde sim resume
    1665 
    1666 > isolde sim pause
    1667 
    1668 > rt
    1669 
    1670 > st
    1671 
    1672 [Repeated 2 time(s)]
    1673 
    1674 > select up
    1675 
    1676 41 atoms, 39 bonds, 2 residues, 2 models selected 
    1677 
    1678 > rt
    1679 
    1680 > isolde sim resume
    1681 
    1682 > isolde sim pause
    1683 
    1684 > st
    1685 
    1686 [Repeated 16 time(s)]
    1687 
    1688 > rt
    1689 
    1690 > isolde sim resume
    1691 
    1692 > isolde sim pause
    1693 
    1694 > st
    1695 
    1696 [Repeated 5 time(s)]
    1697 
    1698 > rt
    1699 
    1700 > isolde sim resume
    1701 
    1702 > isolde sim pause
    1703 
    1704 > st
    1705 
    1706 [Repeated 6 time(s)]
    1707 
    1708 > isolde sim resume
    1709 
    1710 > isolde sim pause
    1711 
    1712 > st
    1713 
    1714 [Repeated 9 time(s)]
    1715 
    1716 > isolde sim resume
    1717 
    1718 > isolde sim pause
    1719 
    1720 > st
    1721 
    1722 > isolde sim resume
    1723 
    1724 > st
    1725 
    1726 > isolde sim pause
    1727 
    1728 > st
    1729 
    1730 [Repeated 5 time(s)]
    1731 
    1732 > isolde sim resume
    1733 
    1734 > isolde sim pause
    1735 
    1736 > st
    1737 
    1738 [Repeated 6 time(s)]
    1739 
    1740 > isolde sim resume
    1741 
    1742 > select clear
    1743 
    1744 > isolde sim pause
    1745 
    1746 > st
    1747 
    1748 [Repeated 2 time(s)]
    1749 
    1750 > rt
    1751 
    1752 > isolde sim resume
    1753 
    1754 > isolde sim pause
    1755 
    1756 > st
    1757 
    1758 [Repeated 24 time(s)]
    1759 
    1760 > isolde sim stop
    1761 
    1762 Sim termination reason: None 
    1763 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    1764 chains... 
    1765 ISOLDE: Corrected atom nomenclature of 18 residues in model #1.2 to IUPAC-IUB
    1766 standards. 
    1767 ISOLDE: stopped sim 
    1768 
    1769 > sequence chain #1/A
    1770 
    1771 Destroying pre-existing alignment with identifier 1.2/A 
    1772 Alignment identifier is 1.2/A 
    1773 
    1774 > save working.cxs
    1775 
    1776 Taking snapshot of stepper: 9ce3 
    1777 
    1778 > aa SER
    1779 
    1780 > isolde sim start #1.2/A:538
    1781 
    1782 ISOLDE: started sim 
    1783 
    1784 > rt
    1785 
    1786 > isolde sim stop
    1787 
    1788 Sim termination reason: None 
    1789 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    1790 chains... 
    1791 ISOLDE: stopped sim 
    1792 
    1793 > aa LEU
    1794 
    1795 > isolde sim start #1.2/A:539
    1796 
    1797 ISOLDE: started sim 
    1798 
    1799 > isolde sim stop
    1800 
    1801 Sim termination reason: None 
    1802 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    1803 chains... 
    1804 ISOLDE: stopped sim 
    1805 
    1806 > aa SER
    1807 
    1808 > isolde sim start #1.2/A:540
    1809 
    1810 ISOLDE: started sim 
    1811 
    1812 > isolde sim stop
    1813 
    1814 Sim termination reason: None 
    1815 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    1816 chains... 
    1817 ISOLDE: stopped sim 
    1818 
    1819 > aa PRO
    1820 
    1821 > isolde sim start #1.2/A:541-542
    1822 
    1823 ISOLDE: started sim 
    1824 
    1825 > select clear
    1826 
    1827 > isolde sim stop
    1828 
    1829 Sim termination reason: None 
    1830 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    1831 chains... 
    1832 ISOLDE: stopped sim 
    1833 
    1834 > st
    1835 
    1836 [Repeated 2 time(s)]
    1837 
    1838 > sequence chain #1/A
    1839 
    1840 Destroying pre-existing alignment with identifier 1.2/A 
    1841 Alignment identifier is 1.2/A 
    1842 
    1843 > st
    1844 
    1845 [Repeated 36 time(s)]
    1846 
    1847 > rt
    1848 
    1849 > isolde sim start #1.2/A:577
    1850 
    1851 ISOLDE: started sim 
    1852 
    1853 > isolde sim stop
    1854 
    1855 Sim termination reason: None 
    1856 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    1857 chains... 
    1858 ISOLDE: stopped sim 
    1859 
    1860 > select #1/A:577-2000
    1861 
    1862 12062 atoms, 12197 bonds, 4 pseudobonds, 757 residues, 2 models selected 
    1863 
    1864 > isolde sim start #1.2/A:577-1762
    1865 
    1866 ISOLDE: started sim 
    1867 
    1868 > select clear
    1869 
    1870 > st
    1871 
    1872 > isolde sim pause
    1873 
    1874 > st
    1875 
    1876 [Repeated 15 time(s)]
    1877 
    1878 > isolde sim resume
    1879 
    1880 > isolde sim pause
    1881 
    1882 > st
    1883 
    1884 > rt
    1885 
    1886 > isolde sim resume
    1887 
    1888 > isolde sim pause
    1889 
    1890 > rt
    1891 
    1892 > st
    1893 
    1894 [Repeated 1 time(s)]
    1895 
    1896 > isolde sim resume
    1897 
    1898 > isolde sim pause
    1899 
    1900 > st
    1901 
    1902 [Repeated 8 time(s)]
    1903 
    1904 > rt
    1905 
    1906 > isolde sim resume
    1907 
    1908 > select clear
    1909 
    1910 > st
    1911 
    1912 > isolde sim pause
    1913 
    1914 > st
    1915 
    1916 [Repeated 39 time(s)]
    1917 
    1918 > isolde sim resume
    1919 
    1920 > rt
    1921 
    1922 > select up
    1923 
    1924 14 atoms, 13 bonds, 1 residue, 1 model selected 
    1925 
    1926 > rt
    1927 
    1928 > select clear
    1929 
    1930 > isolde sim pause
    1931 
    1932 > st
    1933 
    1934 [Repeated 6 time(s)]
    1935 
    1936 > rt
    1937 
    1938 > isolde sim resume
    1939 
    1940 > select clear
    1941 
    1942 > isolde sim pause
    1943 
    1944 > isolde sim resume
    1945 
    1946 > isolde sim pause
    1947 
    1948 > st
    1949 
    1950 [Repeated 8 time(s)]
    1951 
    1952 > rt
    1953 
    1954 > isolde sim resume
    1955 
    1956 > isolde sim pause
    1957 
    1958 > select up
    1959 
    1960 14 atoms, 14 bonds, 1 residue, 1 model selected 
    1961 
    1962 > rt
    1963 
    1964 > isolde sim resume
    1965 
    1966 > rt
    1967 
    1968 [Repeated 1 time(s)]
    1969 
    1970 > isolde sim pause
    1971 
    1972 > isolde sim resume
    1973 
    1974 > isolde sim pause
    1975 
    1976 > st
    1977 
    1978 [Repeated 5 time(s)]
    1979 
    1980 > isolde sim resume
    1981 
    1982 > isolde sim pause
    1983 
    1984 > select clear
    1985 
    1986 > st
    1987 
    1988 [Repeated 12 time(s)]
    1989 
    1990 > isolde sim resume
    1991 
    1992 > isolde sim pause
    1993 
    1994 > st
    1995 
    1996 [Repeated 5 time(s)]
    1997 
    1998 > rt
    1999 
    2000 > isolde sim resume
    2001 
    2002 > isolde sim pause
    2003 
    2004 > st
    2005 
    2006 [Repeated 10 time(s)]
    2007 
    2008 > isolde sim resume
    2009 
    2010 > isolde sim pause
    2011 
    2012 > st
    2013 
    2014 [Repeated 2 time(s)]
    2015 
    2016 > isolde sim resume
    2017 
    2018 > isolde sim pause
    2019 
    2020 > st
    2021 
    2022 [Repeated 4 time(s)]
    2023 
    2024 > isolde sim resume
    2025 
    2026 > isolde sim pause
    2027 
    2028 > st
    2029 
    2030 [Repeated 15 time(s)]
    2031 
    2032 > isolde sim resume
    2033 
    2034 > isolde sim pause
    2035 
    2036 > isolde sim resume
    2037 
    2038 > select clear
    2039 
    2040 > isolde sim pause
    2041 
    2042 > st
    2043 
    2044 [Repeated 40 time(s)]
    2045 
    2046 > rt
    2047 
    2048 > isolde sim resume
    2049 
    2050 > isolde sim pause
    2051 
    2052 > st
    2053 
    2054 [Repeated 8 time(s)]
    2055 
    2056 > isolde sim resume
    2057 
    2058 > isolde sim pause
    2059 
    2060 > st
    2061 
    2062 [Repeated 13 time(s)]
    2063 
    2064 > isolde sim resume
    2065 
    2066 > isolde sim pause
    2067 
    2068 > st
    2069 
    2070 [Repeated 6 time(s)]
    2071 
    2072 > select clear
    2073 
    2074 > isolde sim resume
    2075 
    2076 > rt
    2077 
    2078 > select clear
    2079 
    2080 > isolde sim pause
    2081 
    2082 > st
    2083 
    2084 [Repeated 7 time(s)]
    2085 
    2086 > isolde sim resume
    2087 
    2088 > isolde sim pause
    2089 
    2090 > st
    2091 
    2092 [Repeated 2 time(s)]
    2093 
    2094 > rt
    2095 
    2096 > isolde sim resume
    2097 
    2098 > isolde sim pause
    2099 
    2100 > st
    2101 
    2102 [Repeated 19 time(s)]
    2103 
    2104 > isolde sim resume
    2105 
    2106 > isolde sim pause
    2107 
    2108 > st
    2109 
    2110 [Repeated 37 time(s)]
    2111 
    2112 > isolde sim resume
    2113 
    2114 > isolde sim pause
    2115 
    2116 > st
    2117 
    2118 [Repeated 29 time(s)]
    2119 
    2120 > isolde sim resume
    2121 
    2122 > isolde sim pause
    2123 
    2124 > st
    2125 
    2126 [Repeated 3 time(s)]
    2127 
    2128 > ra
    2129 
    2130 [Repeated 1 time(s)]
    2131 
    2132 > isolde sim resume
    2133 
    2134 > select clear
    2135 
    2136 > isolde sim pause
    2137 
    2138 > isolde pepflip #1.2/A:927
    2139 
    2140 > isolde sim resume
    2141 
    2142 > isolde sim pause
    2143 
    2144 > st
    2145 
    2146 [Repeated 11 time(s)]
    2147 
    2148 > select up
    2149 
    2150 24 atoms, 23 bonds, 1 residue, 1 model selected 
    2151 
    2152 > ra
    2153 
    2154 > isolde sim resume
    2155 
    2156 > isolde sim pause
    2157 
    2158 > st
    2159 
    2160 [Repeated 19 time(s)]
    2161 
    2162 > isolde sim resume
    2163 
    2164 > isolde sim pause
    2165 
    2166 > st
    2167 
    2168 [Repeated 18 time(s)]
    2169 
    2170 > select up
    2171 
    2172 14 atoms, 13 bonds, 1 residue, 1 model selected 
    2173 
    2174 > rt
    2175 
    2176 > isolde sim resume
    2177 
    2178 > isolde sim pause
    2179 
    2180 > select clear
    2181 
    2182 > st
    2183 
    2184 [Repeated 2 time(s)]
    2185 
    2186 > rt
    2187 
    2188 > isolde sim resume
    2189 
    2190 > isolde sim pause
    2191 
    2192 > st
    2193 
    2194 [Repeated 7 time(s)]
    2195 
    2196 > rt
    2197 
    2198 [Repeated 1 time(s)]
    2199 
    2200 > isolde sim resume
    2201 
    2202 > isolde sim pause
    2203 
    2204 > st
    2205 
    2206 [Repeated 24 time(s)]
    2207 
    2208 > select up
    2209 
    2210 14 atoms, 12 bonds, 2 residues, 2 models selected 
    2211 
    2212 > select up
    2213 
    2214 55 atoms, 54 bonds, 5 residues, 2 models selected 
    2215 
    2216 > rt
    2217 
    2218 [Repeated 1 time(s)]
    2219 
    2220 > isolde sim resume
    2221 
    2222 > select clear
    2223 
    2224 > isolde pepflip #1.2/A:1076
    2225 
    2226 > isolde sim pause
    2227 
    2228 > st
    2229 
    2230 [Repeated 9 time(s)]
    2231 
    2232 > isolde sim resume
    2233 
    2234 > select clear
    2235 
    2236 > select up
    2237 
    2238 17 atoms, 16 bonds, 1 residue, 1 model selected 
    2239 
    2240 > rt
    2241 
    2242 > select clear
    2243 
    2244 > rt
    2245 
    2246 [Repeated 1 time(s)]
    2247 
    2248 > select up
    2249 
    2250 19 atoms, 18 bonds, 1 residue, 2 models selected 
    2251 
    2252 > rt
    2253 
    2254 > st
    2255 
    2256 [Repeated 28 time(s)]
    2257 
    2258 > select up
    2259 
    2260 10 atoms, 9 bonds, 1 residue, 1 model selected 
    2261 
    2262 >
    2263 
    2264 Incomplete command: toolshed 
    2265 
    2266 > rt
    2267 
    2268 [Repeated 1 time(s)]
    2269 
    2270 > st
    2271 
    2272 > rt
    2273 
    2274 > isolde sim pause
    2275 
    2276 > st
    2277 
    2278 [Repeated 1 time(s)]
    2279 
    2280 > rt
    2281 
    2282 > isolde sim resume
    2283 
    2284 > isolde sim pause
    2285 
    2286 > st
    2287 
    2288 [Repeated 1 time(s)]
    2289 
    2290 > rt
    2291 
    2292 > isolde sim resume
    2293 
    2294 > rt
    2295 
    2296 > isolde sim pause
    2297 
    2298 > st
    2299 
    2300 [Repeated 12 time(s)]
    2301 
    2302 > isolde sim resume
    2303 
    2304 > isolde sim pause
    2305 
    2306 > st
    2307 
    2308 [Repeated 9 time(s)]
    2309 
    2310 > isolde sim resume
    2311 
    2312 > isolde pepflip #1.2/A:1240
    2313 
    2314 [Repeated 1 time(s)]
    2315 
    2316 > isolde pepflip #1.2/A:1239
    2317 
    2318 > select up
    2319 
    2320 11 atoms, 10 bonds, 1 residue, 1 model selected 
    2321 
    2322 > rt
    2323 
    2324 > isolde pepflip #!1.2/A:1242
    2325 
    2326 [Repeated 1 time(s)]
    2327 
    2328 > select clear
    2329 
    2330 > isolde pepflip #1.2/A:1240
    2331 
    2332 > isolde pepflip #1.2/A:1238
    2333 
    2334 > show #!2 models
    2335 
    2336 > matchmaker #2/A to #1/A:1200-1300
    2337 
    2338 Computing secondary structure 
    2339 [Repeated 1 time(s)]  Parameters 
    2340 --- 
    2341 Chain pairing | bb 
    2342 Alignment algorithm | Needleman-Wunsch 
    2343 Similarity matrix | BLOSUM-62 
    2344 SS fraction | 0.3 
    2345 Gap open (HH/SS/other) | 18/18/6 
    2346 Gap extend | 1 
    2347 SS matrix |  |  | H | S | O 
    2348 ---|---|---|--- 
    2349 H | 6 | -9 | -6 
    2350 S |  | 6 | -6 
    2351 O |  |  | 4 
    2352 Iteration cutoff | 2 
    2353  
    2354 Matchmaker 9ce3, chain A (#1.2) with AlphaFold TSC2_HUMAN chain A, chain A
    2355 (#2.1), sequence alignment score = 206.7 
    2356 RMSD between 20 pruned atom pairs is 0.767 angstroms; (across all 49 pairs:
    2357 8.788) 
    2358  
    2359 
    2360 > matchmaker #2/A to #1/A:1200-1250
    2361 
    2362 Computing secondary structure 
    2363 [Repeated 1 time(s)]  Parameters 
    2364 --- 
    2365 Chain pairing | bb 
    2366 Alignment algorithm | Needleman-Wunsch 
    2367 Similarity matrix | BLOSUM-62 
    2368 SS fraction | 0.3 
    2369 Gap open (HH/SS/other) | 18/18/6 
    2370 Gap extend | 1 
    2371 SS matrix |  |  | H | S | O 
    2372 ---|---|---|--- 
    2373 H | 6 | -9 | -6 
    2374 S |  | 6 | -6 
    2375 O |  |  | 4 
    2376 Iteration cutoff | 2 
    2377  
    2378 Matchmaker 9ce3, chain A (#1.2) with AlphaFold TSC2_HUMAN chain A, chain A
    2379 (#2.1), sequence alignment score = 206.7 
    2380 RMSD between 20 pruned atom pairs is 0.760 angstroms; (across all 49 pairs:
    2381 8.758) 
    2382  
    2383 
    2384 > show #2/A
    2385 
    2386 > isolde sim pause
    2387 
    2388 > hide #!2 models
    2389 
    2390 > show #!2 models
    2391 
    2392 > matchmaker #2/A to #1/A
    2393 
    2394 Computing secondary structure 
    2395 [Repeated 1 time(s)]  Parameters 
    2396 --- 
    2397 Chain pairing | bb 
    2398 Alignment algorithm | Needleman-Wunsch 
    2399 Similarity matrix | BLOSUM-62 
    2400 SS fraction | 0.3 
    2401 Gap open (HH/SS/other) | 18/18/6 
    2402 Gap extend | 1 
    2403 SS matrix |  |  | H | S | O 
    2404 ---|---|---|--- 
    2405 H | 6 | -9 | -6 
    2406 S |  | 6 | -6 
    2407 O |  |  | 4 
    2408 Iteration cutoff | 2 
    2409  
    2410 Matchmaker 9ce3, chain A (#1.2) with AlphaFold TSC2_HUMAN chain A, chain A
    2411 (#2.1), sequence alignment score = 8229.9 
    2412 RMSD between 441 pruned atom pairs is 1.025 angstroms; (across all 1299 pairs:
    2413 7.818) 
    2414  
    2415 
    2416 > hide #2.2 models
    2417 
    2418 > hide #2.3 models
    2419 
    2420 > hide #2.4 models
    2421 
    2422 > hide #2.5 models
    2423 
    2424 > hide #2.6 models
    2425 
    2426 > hide #!2 models
    2427 
    2428 > open 7dl2
    2429 
    2430 Summary of feedback from opening 7dl2 fetched from pdb 
    2431 --- 
    2432 note | Fetching compressed mmCIF 7dl2 from http://files.rcsb.org/download/7dl2.cif 
    2433  
    2434 7dl2 title: 
    2435 Cryo-EM structure of human TSC complex [more info...] 
    2436  
    2437 Chain information for 7dl2 #4 
    2438 --- 
    2439 Chain | Description | UniProt 
    2440 A B | Isoform 7 of Tuberin | TSC2_HUMAN 50-1807 
    2441 C D | Hamartin | TSC1_HUMAN 1-1164 
    2442 E | TBC1 domain family member 7 | TBCD7_HUMAN 21-287 
    2443 F | unknown protein |   
    2444  
    2445 
    2446 > matchmaker #4 to #1/A
    2447 
    2448 Computing secondary structure 
    2449 [Repeated 1 time(s)]  Parameters 
    2450 --- 
    2451 Chain pairing | bb 
    2452 Alignment algorithm | Needleman-Wunsch 
    2453 Similarity matrix | BLOSUM-62 
    2454 SS fraction | 0.3 
    2455 Gap open (HH/SS/other) | 18/18/6 
    2456 Gap extend | 1 
    2457 SS matrix |  |  | H | S | O 
    2458 ---|---|---|--- 
    2459 H | 6 | -9 | -6 
    2460 S |  | 6 | -6 
    2461 O |  |  | 4 
    2462 Iteration cutoff | 2 
    2463  
    2464 Matchmaker 9ce3, chain A (#1.2) with 7dl2, chain A (#4), sequence alignment
    2465 score = 7076.1 
    2466 RMSD between 576 pruned atom pairs is 1.205 angstroms; (across all 1127 pairs:
    2467 6.991) 
    2468  
    2469 
    2470 > style sel stick
    2471 
    2472 Changed 1 atom style 
    2473 
    2474 > ~select
    2475 
    2476 Nothing selected 
    2477 
    2478 > style #!4#!1.2 stick
    2479 
    2480 Changed 93910 atom styles 
    2481 
    2482 > hide #!4 models
    2483 
    2484 > show #!2 models
    2485 
    2486 > hide #!2.1 models
    2487 
    2488 > ui mousemode right "mark point"
    2489 
    2490 > marker #5 position 307.5,389.8,345.6 color yellow radius 1
    2491 
    2492 > label sel text "suspect register wrong here. AF-multimer job?"
    2493 
    2494 > st
    2495 
    2496 [Repeated 25 time(s)]
    2497 
    2498 > rt
    2499 
    2500 > isolde sim resume
    2501 
    2502 > ui mousemode right "isolde tug atom"
    2503 
    2504 > isolde sim pause
    2505 
    2506 > st
    2507 
    2508 > rt
    2509 
    2510 > isolde sim resume
    2511 
    2512 > isolde pepflip #1.2/A:1509
    2513 
    2514 > select up
    2515 
    2516 12 atoms, 11 bonds, 1 residue, 2 models selected 
    2517 
    2518 > rt
    2519 
    2520 [Repeated 1 time(s)]
    2521 
    2522 > isolde pepflip #1.2/A:1512
    2523 
    2524 > select up
    2525 
    2526 15 atoms, 14 bonds, 1 residue, 2 models selected 
    2527 
    2528 > rt
    2529 
    2530 > select up
    2531 
    2532 22 atoms, 21 bonds, 1 residue, 1 model selected 
    2533 
    2534 > rt
    2535 
    2536 > isolde sim pause
    2537 
    2538 > ui mousemode right "mark point"
    2539 
    2540 > marker #5 position 311.3,356.8,335.5 color yellow radius 1
    2541 
    2542 > label sel text "problematic interaction between A and B"
    2543 
    2544 > ui mousemode right "isolde tug atom"
    2545 
    2546 > st
    2547 
    2548 [Repeated 25 time(s)]
    2549 
    2550 > isolde sim resume
    2551 
    2552 > isolde sim pause
    2553 
    2554 > st
    2555 
    2556 [Repeated 9 time(s)]
    2557 
    2558 > isolde sim resume
    2559 
    2560 > select up
    2561 
    2562 17 atoms, 16 bonds, 1 residue, 1 model selected 
    2563 
    2564 > rt
    2565 
    2566 > isolde sim pause
    2567 
    2568 > st
    2569 
    2570 [Repeated 25 time(s)]
    2571 
    2572 > rt
    2573 
    2574 > isolde sim resume
    2575 
    2576 > isolde sim pause
    2577 
    2578 > st
    2579 
    2580 [Repeated 9 time(s)]
    2581 
    2582 > rt
    2583 
    2584 > isolde sim resume
    2585 
    2586 > isolde sim pause
    2587 
    2588 > st
    2589 
    2590 > isolde sim resume
    2591 
    2592 > isolde sim pause
    2593 
    2594 > st
    2595 
    2596 [Repeated 6 time(s)]
    2597 
    2598 > isolde sim resume
    2599 
    2600 > isolde sim pause
    2601 
    2602 > isolde sim resume
    2603 
    2604 > isolde sim pause
    2605 
    2606 > st
    2607 
    2608 [Repeated 10 time(s)]
    2609 
    2610 > rt
    2611 
    2612 > isolde sim resume
    2613 
    2614 > isolde sim pause
    2615 
    2616 > rt
    2617 
    2618 > st
    2619 
    2620 [Repeated 6 time(s)]
    2621 
    2622 > isolde sim resume
    2623 
    2624 > isolde sim pause
    2625 
    2626 > st
    2627 
    2628 [Repeated 3 time(s)]
    2629 
    2630 > rt
    2631 
    2632 [Repeated 1 time(s)]
    2633 
    2634 > isolde sim resume
    2635 
    2636 > isolde sim pause
    2637 
    2638 > st
    2639 
    2640 [Repeated 25 time(s)]
    2641 
    2642 > isolde sim stop
    2643 
    2644 Sim termination reason: None 
    2645 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2646 chains... 
    2647 ISOLDE: Corrected atom nomenclature of 9 residues in model #1.2 to IUPAC-IUB
    2648 standards. 
    2649 ISOLDE: stopped sim 
    2650 
    2651 > show #!2.1 models
    2652 
    2653 > hide #!2 models
    2654 
    2655 > view #1/B:1635
    2656 
    2657 > view #1/A:1635
    2658 
    2659 > ui mousemode right "mark point"
    2660 
    2661 > marker #5 position 287,361.5,384.2 color yellow radius 1
    2662 
    2663 > label sel text "Extra density on Cys A1635"
    2664 
    2665 > select clear
    2666 
    2667 > st
    2668 
    2669 [Repeated 16 time(s)]
    2670 
    2671 > rt
    2672 
    2673 > isolde sim start #1.2/A:1652
    2674 
    2675 ISOLDE: started sim 
    2676 
    2677 > rt
    2678 
    2679 > isolde sim stop
    2680 
    2681 Sim termination reason: None 
    2682 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2683 chains... 
    2684 ISOLDE: stopped sim 
    2685 
    2686 > st
    2687 
    2688 [Repeated 4 time(s)]
    2689 
    2690 > rt
    2691 
    2692 > isolde sim start #1.2/A:1657
    2693 
    2694 ISOLDE: started sim 
    2695 
    2696 > isolde sim stop
    2697 
    2698 Sim termination reason: None 
    2699 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2700 chains... 
    2701 ISOLDE: stopped sim 
    2702 
    2703 > st
    2704 
    2705 [Repeated 36 time(s)]
    2706 
    2707 > isolde sim start #1.2/A:1694
    2708 
    2709 ISOLDE: started sim 
    2710 
    2711 > isolde sim stop
    2712 
    2713 Sim termination reason: None 
    2714 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2715 chains... 
    2716 ISOLDE: stopped sim 
    2717 
    2718 > st
    2719 
    2720 [Repeated 18 time(s)]
    2721 
    2722 > rt
    2723 
    2724 > isolde sim start #1.2/A:1713
    2725 
    2726 ISOLDE: started sim 
    2727 
    2728 > isolde sim stop
    2729 
    2730 Sim termination reason: None 
    2731 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2732 chains... 
    2733 ISOLDE: stopped sim 
    2734 
    2735 > st
    2736 
    2737 [Repeated 13 time(s)]
    2738 
    2739 > rt
    2740 
    2741 > isolde sim start #1.2/A:1727
    2742 
    2743 ISOLDE: started sim 
    2744 
    2745 > select clear
    2746 
    2747 > isolde sim stop
    2748 
    2749 Sim termination reason: None 
    2750 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2751 chains... 
    2752 ISOLDE: stopped sim 
    2753 
    2754 > st
    2755 
    2756 [Repeated 1 time(s)]
    2757 
    2758 > isolde sim start #1.2/A:1729
    2759 
    2760 ISOLDE: started sim 
    2761 
    2762 > isolde sim stop
    2763 
    2764 Sim termination reason: None 
    2765 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2766 chains... 
    2767 ISOLDE: stopped sim 
    2768 
    2769 > st
    2770 
    2771 [Repeated 21 time(s)]
    2772 
    2773 > isolde sim start #1.2/A:1751
    2774 
    2775 ISOLDE: started sim 
    2776 
    2777 > rt
    2778 
    2779 > isolde sim stop
    2780 
    2781 Sim termination reason: None 
    2782 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2783 chains... 
    2784 ISOLDE: stopped sim 
    2785 
    2786 > st
    2787 
    2788 [Repeated 10 time(s)]
    2789 
    2790 > save working.cxs
    2791 
    2792 Taking snapshot of stepper: 9ce3 
    2793 
    2794 > isolde restrain distances #1/B templateAtoms #1/A useCoordinateAlignment
    2795 > false
    2796 
    2797 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2798 chains... 
    2799 Computing secondary structure 
    2800 
    2801 > isolde restrain torsions #1/B templateResidues #1/A
    2802 
    2803 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2804 chains... 
    2805 Computing secondary structure 
    2806 
    2807 > select #1/B
    2808 
    2809 20522 atoms, 20733 bonds, 5 pseudobonds, 1282 residues, 2 models selected 
    2810 
    2811 > isolde sim start #1.2/B
    2812 
    2813 ISOLDE: started sim 
    2814 
    2815 > select clear
    2816 
    2817 > isolde sim pause
    2818 
    2819 > isolde sim resume
    2820 
    2821 > isolde sim pause
    2822 
    2823 > show #2.2 models
    2824 
    2825 > hide #!2.1 models
    2826 
    2827 > show #2/B
    2828 
    2829 > show #!2.1 models
    2830 
    2831 > hide #!2.1 models
    2832 
    2833 > hide #!2 models
    2834 
    2835 > ui mousemode right "mark point"
    2836 
    2837 > marker #5 position 303.8,358.1,329.2 color yellow radius 1
    2838 
    2839 > label sel text "Definitely wrong sequence assigned here"sel /A,B:935
    2840 
    2841 Invalid "text" argument: Expected 'default' or a text string 
    2842 
    2843 > select clear
    2844 
    2845 > save working.pdb #1
    2846 
    2847 > open working.pdb
    2848 
    2849 Chain information for working.pdb #6 
    2850 --- 
    2851 Chain | Description 
    2852 A B | No description available 
    2853 C D | No description available 
    2854 E | No description available 
    2855 F | No description available 
    2856 G H | No description available 
    2857  
    2858 
    2859 > matchmaker #6/B to #1/A
    2860 
    2861 Computing secondary structure 
    2862 [Repeated 1 time(s)]  Parameters 
    2863 --- 
    2864 Chain pairing | bb 
    2865 Alignment algorithm | Needleman-Wunsch 
    2866 Similarity matrix | BLOSUM-62 
    2867 SS fraction | 0.3 
    2868 Gap open (HH/SS/other) | 18/18/6 
    2869 Gap extend | 1 
    2870 SS matrix |  |  | H | S | O 
    2871 ---|---|---|--- 
    2872 H | 6 | -9 | -6 
    2873 S |  | 6 | -6 
    2874 O |  |  | 4 
    2875 Iteration cutoff | 2 
    2876  
    2877 Matchmaker 9ce3, chain A (#1.2) with working.pdb, chain B (#6), sequence
    2878 alignment score = 8426.8 
    2879 RMSD between 376 pruned atom pairs is 0.826 angstroms; (across all 1280 pairs:
    2880 16.401) 
    2881  
    2882 
    2883 > select clear
    2884 
    2885 > matchmaker #6/A to #1/B
    2886 
    2887 Computing secondary structure 
    2888 [Repeated 1 time(s)]  Parameters 
    2889 --- 
    2890 Chain pairing | bb 
    2891 Alignment algorithm | Needleman-Wunsch 
    2892 Similarity matrix | BLOSUM-62 
    2893 SS fraction | 0.3 
    2894 Gap open (HH/SS/other) | 18/18/6 
    2895 Gap extend | 1 
    2896 SS matrix |  |  | H | S | O 
    2897 ---|---|---|--- 
    2898 H | 6 | -9 | -6 
    2899 S |  | 6 | -6 
    2900 O |  |  | 4 
    2901 Iteration cutoff | 2 
    2902  
    2903 Matchmaker 9ce3, chain B (#1.2) with working.pdb, chain A (#6), sequence
    2904 alignment score = 8426.8 
    2905 RMSD between 376 pruned atom pairs is 0.826 angstroms; (across all 1280 pairs:
    2906 16.402) 
    2907  
    2908 
    2909 > hide #!6 models
    2910 
    2911 > select #1/B
    2912 
    2913 20522 atoms, 20733 bonds, 5 pseudobonds, 1282 residues, 2 models selected 
    2914 
    2915 > ra
    2916 
    2917 > isolde sim resume
    2918 
    2919 > select clear
    2920 
    2921 [Repeated 1 time(s)]
    2922 
    2923 > marker #5 position 315.8,385.9,358.8 color yellow radius 1
    2924 
    2925 > delete sel
    2926 
    2927 > ui mousemode right "isolde tug atom"
    2928 
    2929 > isolde sim stop
    2930 
    2931 Sim termination reason: None 
    2932 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2933 chains... 
    2934 ISOLDE: Corrected atom nomenclature of 21 residues in model #1.2 to IUPAC-IUB
    2935 standards. 
    2936 ISOLDE: stopped sim 
    2937 
    2938 > st /C
    2939 
    2940 Multiple residues selected! Going to the first... 
    2941 
    2942 > st
    2943 
    2944 [Repeated 25 time(s)]
    2945 
    2946 > isolde sim start #!1.2/C:32
    2947 
    2948 ISOLDE: started sim 
    2949 
    2950 > select clear
    2951 
    2952 > isolde sim stop
    2953 
    2954 Sim termination reason: None 
    2955 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2956 chains... 
    2957 ISOLDE: stopped sim 
    2958 
    2959 > st
    2960 
    2961 [Repeated 7 time(s)]
    2962 
    2963 > select clear
    2964 
    2965 > isolde sim start #1.2/C:40
    2966 
    2967 ISOLDE: started sim 
    2968 
    2969 > isolde sim stop
    2970 
    2971 Sim termination reason: None 
    2972 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    2973 chains... 
    2974 ISOLDE: stopped sim 
    2975 
    2976 > st
    2977 
    2978 > show #2.3 models
    2979 
    2980 > hide #2.2 models
    2981 
    2982 > show #2.3
    2983 
    2984 > color #2.3 byhetero
    2985 
    2986 > select clear
    2987 
    2988 > cartoon #2.3 suppressBackboneDisplay false
    2989 
    2990 > hide #2.3 models
    2991 
    2992 > st
    2993 
    2994 [Repeated 3 time(s)]
    2995 
    2996 > isolde sim start #1.2/C:45
    2997 
    2998 ISOLDE: started sim 
    2999 
    3000 > isolde sim stop
    3001 
    3002 Sim termination reason: None 
    3003 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3004 chains... 
    3005 ISOLDE: Corrected atom nomenclature of 1 residues in model #1.2 to IUPAC-IUB
    3006 standards. 
    3007 ISOLDE: stopped sim 
    3008 
    3009 > st
    3010 
    3011 [Repeated 21 time(s)]
    3012 
    3013 > isolde sim start #1.2/C:67
    3014 
    3015 ISOLDE: started sim 
    3016 
    3017 > isolde cisflip #1.2/C:67
    3018 
    3019 [Repeated 1 time(s)]
    3020 
    3021 > show #2.3 models
    3022 
    3023 > hide #2.3 models
    3024 
    3025 > isolde sim pause
    3026 
    3027 > sequence chain #1/C
    3028 
    3029 Alignment identifier is 1.2/C 
    3030 
    3031 > select
    3032 > #1.2/C:7-14,19-35,40-52,55-62,68-81,83-98,102-108,112-121,126-142,144-167,174-194,196-207,213-226,231-233,238-242,244-249,252-262,605-611,613-619,656-662,669-673,676-678,685-969
    3033 
    3034 8711 atoms, 8765 bonds, 520 residues, 1 model selected 
    3035 
    3036 > isolde sim stop
    3037 
    3038 Sim termination reason: None 
    3039 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3040 chains... 
    3041 ISOLDE: stopped sim 
    3042 
    3043 > view #1/D:67
    3044 
    3045 > view #1/C:67
    3046 
    3047 > select #1/C
    3048 
    3049 10162 atoms, 10256 bonds, 2 pseudobonds, 616 residues, 2 models selected 
    3050 
    3051 > isolde sim start #1.2/C
    3052 
    3053 ISOLDE: started sim 
    3054 
    3055 > select clear
    3056 
    3057 > isolde cisflip #1.2/C:67
    3058 
    3059 > isolde cisflip #1.2/C:39
    3060 
    3061 > st
    3062 
    3063 [Repeated 2 time(s)]
    3064 
    3065 > isolde sim pause
    3066 
    3067 > st
    3068 
    3069 [Repeated 1 time(s)]
    3070 
    3071 > show #2.3 models
    3072 
    3073 > hide #2.3 models
    3074 
    3075 > st
    3076 
    3077 [Repeated 13 time(s)]
    3078 
    3079 > isolde sim resume
    3080 
    3081 > isolde sim pause
    3082 
    3083 > st
    3084 
    3085 [Repeated 12 time(s)]
    3086 
    3087 > isolde sim resume
    3088 
    3089 > isolde sim pause
    3090 
    3091 > st
    3092 
    3093 > show #2.3 models
    3094 
    3095 > hide #2.3 models
    3096 
    3097 > st
    3098 
    3099 [Repeated 8 time(s)]
    3100 
    3101 > isolde sim resume
    3102 
    3103 > isolde sim pause
    3104 
    3105 > st
    3106 
    3107 [Repeated 1 time(s)]
    3108 
    3109 > isolde sim resume
    3110 
    3111 > isolde cisflip #1.2/C:111
    3112 
    3113 > isolde pepflip #1.2/C:110
    3114 
    3115 > isolde pepflip #1.2/C:112
    3116 
    3117 [Repeated 2 time(s)]
    3118 
    3119 > isolde sim pause
    3120 
    3121 > st
    3122 
    3123 [Repeated 6 time(s)]
    3124 
    3125 > isolde sim resume
    3126 
    3127 > isolde sim pause
    3128 
    3129 > st
    3130 
    3131 [Repeated 3 time(s)]
    3132 
    3133 > isolde sim resume
    3134 
    3135 > isolde sim pause
    3136 
    3137 > st
    3138 
    3139 [Repeated 45 time(s)]
    3140 
    3141 > isolde sim resume
    3142 
    3143 > isolde pepflip #1.2/C:168
    3144 
    3145 > isolde sim pause
    3146 
    3147 > st
    3148 
    3149 [Repeated 37 time(s)]
    3150 
    3151 > isolde sim resume
    3152 
    3153 > select clear
    3154 
    3155 > isolde sim pause
    3156 
    3157 > select clear
    3158 
    3159 > st
    3160 
    3161 [Repeated 4 time(s)]
    3162 
    3163 > isolde sim resume
    3164 
    3165 > isolde sim pause
    3166 
    3167 > st
    3168 
    3169 [Repeated 34 time(s)]
    3170 
    3171 > isolde sim resume
    3172 
    3173 > select clear
    3174 
    3175 > isolde sim pause
    3176 
    3177 > st
    3178 
    3179 [Repeated 10 time(s)]
    3180 
    3181 > isolde sim resume
    3182 
    3183 > isolde sim pause
    3184 
    3185 > st
    3186 
    3187 [Repeated 8 time(s)]
    3188 
    3189 > view #1/C:716
    3190 
    3191 > show #2.3 models
    3192 
    3193 > hide #2.3 models
    3194 
    3195 > st
    3196 
    3197 > show #2.4 models
    3198 
    3199 > select #1/D:712
    3200 
    3201 17 atoms, 17 bonds, 1 residue, 1 model selected 
    3202 
    3203 > matchmaker #2/D to #1/D
    3204 
    3205 Computing secondary structure 
    3206 [Repeated 1 time(s)]  Parameters 
    3207 --- 
    3208 Chain pairing | bb 
    3209 Alignment algorithm | Needleman-Wunsch 
    3210 Similarity matrix | BLOSUM-62 
    3211 SS fraction | 0.3 
    3212 Gap open (HH/SS/other) | 18/18/6 
    3213 Gap extend | 1 
    3214 SS matrix |  |  | H | S | O 
    3215 ---|---|---|--- 
    3216 H | 6 | -9 | -6 
    3217 S |  | 6 | -6 
    3218 O |  |  | 4 
    3219 Iteration cutoff | 2 
    3220  
    3221 Matchmaker 9ce3, chain D (#1.2) with AlphaFold TSC1_HUMAN chain D, chain D
    3222 (#2.4), sequence alignment score = 5090.8 
    3223 RMSD between 37 pruned atom pairs is 0.939 angstroms; (across all 581 pairs:
    3224 80.266) 
    3225  
    3226 
    3227 > matchmaker #2/D to #1/D:600-800
    3228 
    3229 Computing secondary structure 
    3230 [Repeated 1 time(s)]  Parameters 
    3231 --- 
    3232 Chain pairing | bb 
    3233 Alignment algorithm | Needleman-Wunsch 
    3234 Similarity matrix | BLOSUM-62 
    3235 SS fraction | 0.3 
    3236 Gap open (HH/SS/other) | 18/18/6 
    3237 Gap extend | 1 
    3238 SS matrix |  |  | H | S | O 
    3239 ---|---|---|--- 
    3240 H | 6 | -9 | -6 
    3241 S |  | 6 | -6 
    3242 O |  |  | 4 
    3243 Iteration cutoff | 2 
    3244  
    3245 Matchmaker 9ce3, chain D (#1.2) with AlphaFold TSC1_HUMAN chain D, chain D
    3246 (#2.4), sequence alignment score = 815.8 
    3247 RMSD between 20 pruned atom pairs is 1.156 angstroms; (across all 159 pairs:
    3248 19.388) 
    3249  
    3250 
    3251 > hide #2.4 models
    3252 
    3253 > st
    3254 
    3255 [Repeated 26 time(s)]
    3256 
    3257 > isolde sim resume
    3258 
    3259 > select clear
    3260 
    3261 > isolde sim pause
    3262 
    3263 > select clear
    3264 
    3265 > st
    3266 
    3267 [Repeated 9 time(s)]
    3268 
    3269 > show #2.3 models
    3270 
    3271 > ui mousemode right "mark point"
    3272 
    3273 > marker #5 position 374.7,326.3,157.4 color yellow radius 1
    3274 
    3275 > ui mousemode right "isolde tug atom"
    3276 
    3277 > select clear
    3278 
    3279 > hide #2.3 models
    3280 
    3281 > stst
    3282 
    3283 Unknown command: stst 
    3284 
    3285 > st
    3286 
    3287 [Repeated 21 time(s)]
    3288 
    3289 > show #2.4 models
    3290 
    3291 > ui mousemode right "mark point"
    3292 
    3293 > marker #5 position 376.1,303,146.6 color yellow radius 1
    3294 
    3295 > label sel text "looks incorrectly assigned"
    3296 
    3297 > ui mousemode right "isolde tug atom"
    3298 
    3299 > hide #2.4 models
    3300 
    3301 > select #5:6
    3302 
    3303 1 atom, 1 residue, 1 model selected 
    3304 
    3305 > label sel text "looks incorrectly assigned"
    3306 
    3307 > select clear
    3308 
    3309 > st
    3310 
    3311 [Repeated 7 time(s)]
    3312 
    3313 > show #2.4 models
    3314 
    3315 > hide #2.4 models
    3316 
    3317 > show #2.3 models
    3318 
    3319 > hide #2.3 models
    3320 
    3321 > st
    3322 
    3323 [Repeated 34 time(s)]
    3324 
    3325 > isolde sim resume
    3326 
    3327 > isolde sim pause
    3328 
    3329 > st
    3330 
    3331 [Repeated 8 time(s)]
    3332 
    3333 > isolde sim stop
    3334 
    3335 Sim termination reason: None 
    3336 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3337 chains... 
    3338 ISOLDE: Corrected atom nomenclature of 13 residues in model #1.2 to IUPAC-IUB
    3339 standards. 
    3340 ISOLDE: stopped sim 
    3341 
    3342 > select up
    3343 
    3344 27 atoms, 26 bonds, 2 residues, 2 models selected 
    3345 
    3346 > select up
    3347 
    3348 3133 atoms, 3147 bonds, 184 residues, 2 models selected 
    3349 
    3350 > isolde sim start #1.2/B:267-269/C:685-865
    3351 
    3352 ISOLDE: started sim 
    3353 
    3354 > select clear
    3355 
    3356 > isolde sim stop
    3357 
    3358 Sim termination reason: None 
    3359 ISOLDE: Checking and correcting nomenclature for (pseudo)symmetric side
    3360 chains... 
    3361 ISOLDE: Corrected atom nomenclature of 4 residues in model #1.2 to IUPAC-IUB
    3362 standards. 
    3363 ISOLDE: stopped sim 
    3364 
    3365 > st
    3366 
    3367 [Repeated 45 time(s)]
    3368 
    3369 > show #2.3 models
    3370 
    3371 > matchmaker #2/C to #1/C:700-800
    3372 
    3373 Computing secondary structure 
    3374 [Repeated 1 time(s)]  Parameters 
    3375 --- 
    3376 Chain pairing | bb 
    3377 Alignment algorithm | Needleman-Wunsch 
    3378 Similarity matrix | BLOSUM-62 
    3379 SS fraction | 0.3 
    3380 Gap open (HH/SS/other) | 18/18/6 
    3381 Gap extend | 1 
    3382 SS matrix |  |  | H | S | O 
    3383 ---|---|---|--- 
    3384 H | 6 | -9 | -6 
    3385 S |  | 6 | -6 
    3386 O |  |  | 4 
    3387 Iteration cutoff | 2 
    3388  
    3389 Matchmaker 9ce3, chain C (#1.2) with AlphaFold TSC1_HUMAN chain C, chain C
    3390 (#2.3), sequence alignment score = 528 
    3391 RMSD between 12 pruned atom pairs is 1.236 angstroms; (across all 101 pairs:
    3392 8.943) 
    3393  
     718[Unfortunately have to delete to fit within ticket size limits -- look at ticket history to see full log]
    3394719
    3395720> matchmaker #2/C to #1/C:750-800