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UCSF ChimeraX Citations

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Selected Citations

Mechanism of spliceosome remodeling by the ATPase/helicase Prp2 and its coactivator Spp2. Bai R, Wan R et al. Science. 2021 Jan 8;371(6525):eabe8863.

Structure of mycobacterial ATP synthase bound to the tuberculosis drug bedaquiline. Guo H, Courbon GM et al. Nature. 2021 Jan 7;589(7840):143-147.

Structure of the class D GPCR Ste2 dimer coupled to two G proteins. Velazhahan V, Ma N et al. Nature. 2021 Jan 7;589(7840):148-153.

Causes and consequences of RNA polymerase II stalling during transcript elongation. Noe Gonzalez M, Blears D, Svejstrup JQ. Nat Rev Mol Cell Biol. 2021 Jan;22(1):3-21.

Using Integrative Modeling Platform to compute, validate, and archive a model of a protein complex structure. Saltzberg DJ, Viswanath S et al. Protein Sci. 2021 Jan;30(1):250-261.

An ultrapotent synthetic nanobody neutralizes SARS-CoV-2 by stabilizing inactive Spike. Schoof M, Faust B et al. Science. 2020 Dec 18;370(6523):1473-1479.

Versatile and multivalent nanobodies efficiently neutralize SARS-CoV-2. Xiang Y, Nambulli S et al. Science. 2020 Dec 18;370(6523):1479-1484.

Genetic interaction mapping informs integrative structure determination of protein complexes. Braberg H, Echeverria I et al. Science. 2020 Dec 11;370(6522):eaaz4910.

Structures and pH-sensing mechanism of the proton-activated chloride channel. Ruan Z, Osei-Owusu J et al. Nature. 2020 Dec 10;588(7837):350-354.

Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms. Gordon DE, Hiatt J et al. Science. 2020 Dec 4;370(6521):eabe9403.

Structure of the activated ROQ1 resistosome directly recognizing the pathogen effector XopQ. Martin R, Qi T et al. Science. 2020 Dec 4;370(6521):eabd9993.

Structural analysis of full-length SARS-CoV-2 spike protein from an advanced vaccine candidate. Bangaru S, Ozorowski G et al. Science. 2020 Nov 27;370(6520):1089-1094.

Ultrapotent human antibodies protect against SARS-CoV-2 challenge via multiple mechanisms. Tortorici MA, Beltramello M et al. Science. 2020 Nov 20;370(6519):950-957.

Structure of the human sodium leak channel NALCN. Kschonsak M, Chua HC et al. Nature. 2020 Nov 12;587(7833):313-318.

The 3.2-Å resolution structure of human mTORC2. Scaiola A, Mangia F et al. Sci Adv. 2020 Nov 6;6(45):eabc1251.

Single-particle cryo-EM at atomic resolution. Nakane T, Kotecha A et al. Nature. 2020 Nov 5;587(7832):152-156.

Cryo-EM reveals the transition of Arp2/3 complex from inactive to nucleation-competent state. Shaaban M, Chowdhury S, Nolen BJ. Nat Struct Mol Biol. 2020 Nov;27(11):1009-1016.

Molecular architecture of the SARS-CoV-2 virus. Yao H, Song Y et al. Cell. 2020 Oct 29;183(3):730-738.e13.

De novo design of picomolar SARS-CoV-2 miniprotein inhibitors. Cao L, Goreshnik I et al. Science. 2020 Oct 23;370(6515):426-431.

Specific features and assembly of the plant mitochondrial complex I revealed by cryo-EM. Soufari H, Parrot C et al. Nat Commun. 2020 Oct 15;11(1):5195.

In situ structural analysis of SARS-CoV-2 spike reveals flexibility mediated by three hinges. Turoňová B, Sikora M et al. Science. 2020 Oct 9;370(6513):203-208.

Structure-guided covalent stabilization of coronavirus spike glycoprotein trimers in the closed conformation. McCallum M, Walls AC et al. Nat Struct Mol Biol. 2020 Oct;27(10):942-949.

Mitochondrial complex I structure reveals ordered water molecules for catalysis and proton translocation. Grba DN, Hirst J. Nat Struct Mol Biol. 2020 Oct;27(10):892-900.

Structures of capsid and capsid-associated tegument complex inside the Epstein-Barr virus. Liu W, Cui Y et al. Nat Microbiol. 2020 Oct;5(10):1285-1298.

The endoplasmic reticulum P5A-ATPase is a transmembrane helix dislocase. McKenna MJ, Sim SI et al. Science. 2020 Sep 25;369(6511). pii: eabc5809.

90S pre-ribosome transformation into the primordial 40S subunit. Cheng J, Lau B et al. Science. 2020 Sep 18;369(6510):1470-1476.

Structure of a human 48S translational initiation complex. Brito Querido J, Sokabe M et al. Science. 2020 Sep 4;369(6508):1220-1227.

Structural basis for translational shutdown and immune evasion by the Nsp1 protein of SARS-CoV-2. Thoms M, Buschauer R et al. Science. 2020 Sep 4;369(6508):1249-1255.

Intrinsic curvature of the HIV-1 CA hexamer underlies capsid topology and interaction with cyclophilin A. Ni T, Gerard S et al. Nat Struct Mol Biol. 2020 Sep;27(9):846–854.

Structures of human pannexin 1 reveal ion pathways and mechanism of gating. Ruan Z, Orozco IJ et al. Nature. 2020 Aug 27;584(7822):646-651.

Potent neutralizing antibodies directed to multiple epitopes on SARS-CoV-2 spike. Liu L, Wang P et al. Nature. 2020 Aug 20;584(7821):450-456.

Binding mechanisms of therapeutic antibodies to human CD20. Kumar A, Planchais C et al. Science. 2020 Aug 14;369(6505):793-799.

Structural basis of the activation of a metabotropic GABA receptor. Shaye H, Ishchenko A et al. Nature. 2020 Aug 13;584(7820):298–303.

Structure of human GABAB receptor in an inactive state. Park J, Fu Z et al. Nature. 2020 Aug 13;584(7820):304-309.

Subnanometer structures of HIV-1 envelope trimers on aldrithiol-2-inactivated virus particles. Li Z, Li W et al. Nat Struct Mol Biol. 2020 Aug;27(8):726-734.

In-cell architecture of an actively transcribing-translating expressome. O'Reilly FJ, Xue L et al. Science. 2020 Jul 31;369(6503):554-557.

Structural insights into differences in G protein activation by family A and family B GPCRs. Hilger D, Kumar KK et al. Science. 2020 Jul 31;369(6503). pii: eaba3373.

Pre-initiation and elongation structures of full-length La Crosse virus polymerase reveal functionally important conformational changes. Arragain B, Effantin G et al. Nat Commun. 2020 Jul 17;11(1):3590.

Cross-neutralization of SARS-CoV-2 by a human monoclonal SARS-CoV antibody. Pinto D, Park YJ et al. Nature. 2020 Jul 9;583(7815):290-295.

How IGF-II binds to the human type 1 insulin-like growth factor receptor. Xu Y, Kirk NS et al. Structure. 2020 Jul 7;28(7):786-798.e6.

Electromechanical coupling in the hyperpolarization-activated K+ channel KAT1. Clark MD, Contreras GF et al. Nature. 2020 Jul 2;583(7814):145-149.

Cryo-EM structure of islet amyloid polypeptide fibrils reveals similarities with amyloid-β fibrils. Röder C, Kupreichyk T et al. Nat Struct Mol Biol. 2020 Jul;27(7):660-667.

Cryo-EM structure of the human cohesin-NIPBL-DNA complex. Shi Z, Gao H et al. Science. 2020 Jun 26;368(6498):1454-1459.

Ciliate mitoribosome illuminates evolutionary steps of mitochondrial translation. Tobiasson V, Amunts A. eLife. 2020 Jun 18;9. pii: e59264.

Structures of cell wall arabinosyltransferases with the anti-tuberculosis drug ethambutol. Zhang L, Zhao Y et al. Science. 2020 Jun 12;368(6496):1211-1219.

The His-Gly motif of acid-sensing ion channels resides in a reentrant 'loop' implicated in gating and ion selectivity. Yoder N, Gouaux E. eLife. 2020 Jun 4;9. pii: e56527.

AcrIF9 tethers non-sequence specific dsDNA to the CRISPR RNA-guided surveillance complex. Hirschi M, Lu WT et al. Nat Commun. 2020 Jun 1;11(1):2730.

HIV-1 envelope and MPER antibody structures in lipid assemblies. Rantalainen K, Berndsen ZT et al. Cell Rep. 2020 Apr 28;31(4):107583.

Structure of a trapped radical transfer pathway within a ribonucleotide reductase holocomplex. Kang G, Taguchi AT et al. Science. 2020 Apr 24;368(6489):424-427.

The Ccr4-Not complex monitors the translating ribosome for codon optimality. Buschauer R, Matsuo Y et al. Science. 2020 Apr 17;368(6488). pii: eaay6912.

Structure, function, and antigenicity of the SARS-CoV-2 spike glycoprotein. Walls AC, Park YJ et al. Cell. 2020 Apr 16;181(2):281-292.e6.

Cryo-EM structure of the RNA-rich plant mitochondrial ribosome. Waltz F, Soufari H et al. Nat Plants. 2020 Apr;6(4):377-383.

Structural basis for the increased processivity of D-family DNA polymerases in complex with PCNA. Madru C, Henneke G et al. Nat Commun. 2020 Mar 27;11(1):1591.

Cryo-EM structure of SWI/SNF complex bound to a nucleosome. Han Y, Reyes AA et al. Nature. 2020 Mar 19;579(7799):452-455.

Structure of V-ATPase from the mammalian brain. Abbas YM, Wu D et al. Science. 2020 Mar 13;367(6483):1240-1246.

Structure of CD20 in complex with the therapeutic monoclonal antibody rituximab. Rougé L, Chiang N et al. Science. 2020 Mar 13;367(6483):1224-1230.

Structure of the neurotensin receptor 1 in complex with β-arrestin 1. Huang W, Masureel M et al. Nature. 2020 Mar 12;579(7798):303-308.

Structure of a paramyxovirus polymerase complex reveals a unique methyltransferase-CTD conformation. Abdella R, Aggarwal M et al. Proc Natl Acad Sci USA. 2020 Mar 3;117(9):4931-4941.

Structure of nucleosome-bound human BAF complex. He S, Wu Z et al. Science. 2020 Feb 21;367(6480):875-881.

Constructing protein polyhedra via orthogonal chemical interactions. Golub E, Subramanian RH et al. Nature. 2020 Feb 6;578(7793):172-176.

Structure of the Bcs1 AAA-ATPase suggests an airlock-like translocation mechanism for folded proteins. Kater L, Wagener N et al. Nat Struct Mol Biol. 2020 Feb;27(2):142-149.

Structure of SAGA and mechanism of TBP deposition on gene promoters. Papai G, Frechard A et al. Nature. 2020 Jan 30;577(7792):711-716.

The inner junction complex of the cilia is an interaction hub that involves tubulin post-translational modifications. Khalifa AAZ, Ichikawa M et al. eLife. 2020 Jan 17;9. pii: e52760.

Architecture of the chromatin remodeler RSC and insights into its nucleosome engagement. Patel AB, Moore CM et al. eLife. 2019 Dec 30;8. pii: e54449.

Molecular basis of force-from-lipids gating in the mechanosensitive channel MscS. Reddy B, Bavi N et al. eLife. 2019 Dec 27;8. pii: e50486.

Cryo-electron microscopy structures of human oligosaccharyltransferase complexes OST-A and OST-B. Ramírez AS, Kowal J, Locher KP. Science. 2019 Dec 13;366(6471):1372-1375.

High-resolution view of the type III secretion export apparatus in situ reveals membrane remodeling and a secretion pathway. Butan C, Lara-Tejero M et al. Proc Natl Acad Sci USA. 2019 Dec 3;116(49):24786-24795.

Federating structural models and data: Outcomes from a workshop on archiving integrative structures. Berman HM, Adams PD et al. Structure. 2019 Dec 3;27(12):1745-1759.

Jump ahead with a twist: DNA acrobatics drive transposition forward. Arinkin V, Smyshlyaev G, Barabas O. Curr Opin Struct Biol. 2019 Dec;59:168-177.

Structures of MERS-CoV spike glycoprotein in complex with sialoside attachment receptors. Park YJ, Walls AC et al. Nat Struct Mol Biol. 2019 Dec;26(12):1151-1157.

Structures of a RAG-like transposase during cut-and-paste transposition. Liu C, Yang Y, Schatz DG. Nature. 2019 Nov 21;575(7783):540-544.

Defects in the assembly of ribosomes selected for β-amino acid incorporation. Ward FR, Watson ZL et al. Biochemistry. 2019 Nov 12;58(45):4494-4504.

Structure of the Fanconi anaemia monoubiquitin ligase complex. Shakeel S, Rajendra E et al. Nature. 2019 Nov 7;575(7781):234-237.

Atomic structures of an entire contractile injection system in both the extended and contracted states. Desfosses A, Venugopal H et al. Nat Microbiol. 2019 Nov;4(11):1885-1894.

Structure of a P element transposase-DNA complex reveals unusual DNA structures and GTP-DNA contacts. Ghanim GE, Kellogg EH et al. Nat Struct Mol Biol. 2019 Nov;26(11):1013-1022.

Cryo-EM structure of the complete E. coli DNA gyrase nucleoprotein complex. Vanden Broeck A, Lotz C et al. Nat Commun. 2019 Oct 30;10(1):4935.

Structural basis for the docking of mTORC1 on the lysosomal surface. Rogala KB, Gu X et al. Science. 2019 Oct 25;366(6464):468-475.

Active site rearrangement and structural divergence in prokaryotic respiratory oxidases. Safarian S, Hahn A et al. Science. 2019 Oct 4;366(6461):100-104.

An antibody against the F glycoprotein inhibits Nipah and Hendra virus infections. Dang HV, Chan YP et al. Nat Struct Mol Biol. 2019 Oct;26(10):980-987.

Cryo-EM structure of the ClpXP protein degradation machinery. Gatsogiannis C, Balogh D et al. Nat Struct Mol Biol. 2019 Oct;26(10):946-954.

Robust and automated detection of subcellular morphological motifs in 3D microscopy images. Driscoll MK, Welf ES et al. Nat Methods. 2019 Oct;16(10):1037-1044.

A unified mechanism for intron and exon definition and back-splicing. Li X, Liu S et al. Nature. 2019 Sep 19;573(7774):375-380.

Mitoribosomal small subunit biogenesis in trypanosomes involves an extensive assembly machinery. Saurer M, Ramrath DJF et al. Science. 2019 Sep 13;365(6458):1144-1149.

CryoEM structures of Arabidopsis DDR complexes involved in RNA-directed DNA methylation. Wongpalee SP, Liu S et al. Nat Commun. 2019 Sep 2;10(1):3916.

Structure of the dynein-2 complex and its assembly with intraflagellar transport trains. Toropova K, Zalyte R et al. Nat Struct Mol Biol. 2019 Sep;26(9):823-829.

Conformational transitions of a neurotensin receptor 1-Gi1 complex. Kato HE, Zhang Y et al. Nature. 2019 Aug 1;572(7767):80-85.

A one-gate elevator mechanism for the human neutral amino acid transporter ASCT2. Garaeva AA, Guskov A et al. Nat Commun. 2019 Jul 31;10(1):3427.

Structural insights into flagellar stator-rotor interactions. Chang Y, Moon KH et al. eLife. 2019 Jul 17;8. pii: e48979.

Archiving and disseminating integrative structure models. Vallat B, Webb B et al. J Biomol NMR. 2019 Jul;73(6-7):385-398.

Cryo-EM structure of the rhodopsin-Gαi-βγ complex reveals binding of the rhodopsin C-terminal tail to the gβ subunit. Tsai CJ, Marino J et al. eLife. 2019 Jun 28;8. pii: e46041.

Structure and function of Vms1 and Arb1 in RQC and mitochondrial proteome homeostasis. Su T, Izawa T et al. Nature. 2019 Jun 27;570(7762):538-542.

Structural and mutational analysis of the ribosome-arresting human XBP1u. Shanmuganathan V, Schiller N et al. eLife. 2019 Jun 27;8. pii: e46267.

Cryo-EM structure of Neurospora crassa respiratory complex IV. Bausewein T, Nussberger S, Kühlbrandt W. IUCrJ. 2019 Jun 26;6(Pt 4):773-780.

High-resolution cryo-EM structures of outbreak strain human norovirus shells reveal size variations. Jung J, Grant T et al. Proc Natl Acad Sci USA. 2019 Jun 25;116(26):12828-12832.

Rotary substates of mitochondrial ATP synthase reveal the basis of flexible F1-Fo coupling. Murphy BJ, Klusch N et al. Science. 2019 Jun 21;364(6446). pii: eaaw9128.

Conformational switches control early maturation of the eukaryotic small ribosomal subunit. Hunziker M, Barandun J et al. eLife. 2019 Jun 17;8. pii: e45185.

Structural basis for human coronavirus attachment to sialic acid receptors. Alejandra Tortorici M, Walls AC et al. Nat Struct Mol Biol. 2019 Jun;26(6):481-489.

Developing picornaviruses for cancer therapy. McCarthy C, Jayawardena N et al. Cancers (Basel). 2019 May 16;11(5). pii: E685.

Cryo-EM structures of the pore-forming A subunit from the Yersinia entomophaga ABC toxin. Piper SJ, Brillault L et al. Nat Commun. 2019 Apr 26;10(1):1952.

Structure reveals a mechanism of CRISPR-RNA-guided nuclease recruitment and anti-CRISPR viral mimicry. Rollins MF, Chowdhury S et al. Mol Cell. 2019 Apr 4;74(1):132-142.e5.


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