UCSF ChimeraX Citations
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Selected Citations
Stereochemistry in the disorder-order continuum of protein interactions. Newcombe EA, Due AD et al. Nature. 2024 Dec 19;636(8043):762–768.
MCM double hexamer loading visualized with human proteins. Weissmann F, Greiwe JF et al. Nature. 2024 Dec 12;636(8042):499–508.
Multiple mechanisms for licensing human replication origins. Yang R, Hunker O et al. Nature. 2024 Dec 12;636(8042):488–498.
Molecular sociology of virus-induced cellular condensates supporting reovirus assembly and replication. Liu X, Xia X et al. Nat Commun. 2024 Dec 6;15(1):10638.
Broadly inhibitory antibodies to severe malaria virulence proteins. Reyes RA, Raghavan SSR et al. Nature. 2024 Dec 5;635(8041):182–189.
Anti-viral defence by an mRNA ADP-ribosyltransferase that blocks translation. Vassallo CN, Doering CR, Laub MT. Nature. 2024 Dec 5;635(8041):190–197.
Neutralizing antibodies elicited in macaques recognize V3 residues on altered conformations of HIV-1 Env trimer. DeLaitsch AT, Keeffe JR et al. NPJ Vaccines. 2024 Dec 5;9(1):240.
Conformational coupling between extracellular and transmembrane domains modulates holo-adhesion GPCR function. Kordon SP, Cechova K et al. Nat Commun. 2024 Dec 4;15(1):10545.
Molecular basis of mRNA delivery to the bacterial ribosome. Webster MW, Chauvier A et al. Science. 2024 Nov 29;386(6725):eado8476.
Design of customized coronavirus receptors. Liu P, Huang ML et al. Nature. 2024 Nov 28;635(8040):978–986.
Specific tRNAs promote mRNA decay by recruiting the CCR4-NOT complex to translating ribosomes. Zhu X, Cruz VE et al. Science. 2024 Nov 22;386(6724):eadq8587.
Structure of the human TIP60-C histone exchange and acetyltransferase complex. Li C, Smirnova E et al. Nature. 2024 Nov 21;635(8039):764-769.
Archaeal type six secretion system mediates contact-dependent antagonism. Zachs T, Malit JJL et al. Sci Adv. 2024 Nov 15;10(46):eadp7088.
Quantifying constraint in the human mitochondrial genome. Lake NJ, Ma K et al. Nature. 2024 Nov 14;635(8038):390-397.
Engineered odorant receptors illuminate the basis of odour discrimination. de March CA, Ma N et al. Nature. 2024 Nov 14;635(8038):499–508.
Diverse anti-defence systems are encoded in the leading region of plasmids. Samuel B, Mittelman K et al. Nature. 2024 Nov 7;635(8037):186-192.
Transcriptome-wide splicing network reveals specialized regulatory functions of the core spliceosome. Rogalska ME, Mancini E et al. Science. 2024 Nov 1;386(6721):551-560.
The human ATAD5 has evolved unique structural elements to function exclusively as a PCNA unloader. Wang F, He Q et al. Struct Mol Biol. 2024 Nov;31(11):1680-1691
LYCHOS is a human hybrid of a plant-like PIN transporter and a GPCR. Bayly-Jones C, Lupton CJ et al. Nature. 2024 Oct 31;634(8036):1238–1244.
Glucose-sensitive insulin with attenuation of hypoglycaemia. Hoeg-Jensen T, Kruse T et al. Nature. 2024 Oct 24;634(8035):944-951.
A brain-to-gut signal controls intestinal fat absorption. Lyu Q, Xue W et al. Nature. 2024 Oct 24;634(8035):936-943.
Heteromeric amyloid filaments of ANXA11 and TDP-43 in FTLD-TDP type C. Arseni D, Nonaka T et al. Nature. 2024 Oct 17;634(8034):662–668.
Structure of a fully assembled γδ T cell antigen receptor. Gully BS, Ferreira Fernandes J et al. Nature. 2024 Oct 17;634(8034):729–736.
A virally encoded tRNA neutralizes the PARIS antiviral defence system. Burman N, Belukhina S et al. Nature. 2024 Oct 10;634(8033):424–431.
Architecture and activation mechanism of the bacterial PARIS defence system. Deep A, Liang Q et al. Nature. 2024 Oct 10;634(8033):432–439.
Intragenic DNA inversions expand bacterial coding capacity. Chanin RB, West PT et al. Nature. 2024 Oct 3;634(8032):234–242.
Structural insights into the human P2X1 receptor and ligand interactions. Bennetts FM, Venugopal H et al. Nat Commun. 2024 Sep 28;15(1):8418.
Mutating a flexible region of the RSV F protein can stabilize the prefusion conformation. Liang Y, Shao S et al. Science. 2024 Sep 27;385(6716):1484-1491.
Structural insights into the high-affinity IgE receptor FcεRI complex. Deng M, Du S et al. Nature. 2024 Sep 26;633(8031):952–959.
Defining bottlenecks and opportunities for Lassa virus neutralization by structural profiling of vaccine-induced polyclonal antibody responses. Brouwer PJM, Perrett HR et al. Cell Rep. 2024 Sep 24;43(9):114708.
Large library docking identifies positive allosteric modulators of the calcium-sensing receptor. Liu F, Wu CG et al. Science. 2024 Sep 20;385(6715):eado1868.
Targeting cancer with small-molecule pan-KRAS degraders. Popow J, Farnaby W et al. Science. 2024 Sep 20;385(6715):1338-1347.
NAC guides a ribosomal multienzyme complex for nascent protein processing. Lentzsch AM, Yudin D et al. Nature. 2024 Sep 19;633(8030):718–724.
Mapping glycoprotein structure reveals Flaviviridae evolutionary history. Mifsud JCO, Lytras S et al. Nature. 2024 Sep 19;633(8030):695–703.
SymProFold: Structural prediction of symmetrical biological assemblies. Buhlheller C, Sagmeister T et al. Nat Commun. 2024 Sep 18;15(1):8152.
Inherent symmetry and flexibility in hepatitis B virus subviral particles. Wang Q, Wang T et al. Science. 2024 Sep 13;385(6714):1217-1224.
Substrate binding and inhibition mechanism of norepinephrine transporter. Ji W, Miao A et al. Nature. 2024 Sep 12;633(8029):473–479.
In situ structure and rotary states of mitochondrial ATP synthase in whole Polytomella cells. Dietrich L, Agip AA et al. Science. 2024 Sep 6;385(6713):1086-1090.
Structural basis for transthiolation intermediates in the ubiquitin pathway. Kochańczyk T, Hann ZS et al. Nature. 2024 Sep 5;633(8028):216–223.
Germline-targeting HIV vaccination induces neutralizing antibodies to the CD4 binding site. Caniels TG, Medina-Ramìrez M et al. Sci Immunol. 2024 Aug 30;9(98):eadk9550.
Cultivation and visualization of a methanogen of the phylum Thermoproteota. Kohtz AJ, Petrosian N et al. Nature. 2024 Aug 29;632(8027):1118–1123.
Structural insights into the human NuA4/TIP60 acetyltransferase and chromatin remodeling complex. Yang Z, Mameri A et al. Science. 2024 Aug 23;385(6711):eadl5816.
De novo design of allosterically switchable protein assemblies. Pillai A, Idris A et al. Nature. 2024 Aug 22;632(8026):911–920.
Molecular basis of human noradrenaline transporter reuptake and inhibition. Tan J, Xiao Y et al. Nature. 2024 Aug 22;632(8026):921–929.
Generative artificial intelligence performs rudimentary structural biology modeling. Ille AM, Markosian C et al. Sci Rep. 2024 Aug 21;14(1):19372.
Atomic structures of a bacteriocin targeting Gram-positive bacteria. Cai X, He Y et al. Nat Commun. 2024 Aug 16;15(1):7057.
Structure and inhibition of SARS-CoV-2 spike refolding in membranes. Grunst MW, Qin Z et al. Science. 2024 Aug 16;385(6710):757-765.
Structure of the human dopamine transporter in complex with cocaine. Nielsen JC, Salomon K et al. Nature. 2024 Aug 15;632(8025):678-685.
Mechanism of allosteric inhibition of human p97/VCP ATPase and its disease mutant by triazole inhibitors. Nandi P, DeVore K et al. Commun Chem. 2024 Aug 9;7(1):177.
Propofol rescues voltage-dependent gating of HCN1 channel epilepsy mutants. Kim ED, Wu X et al. Nature. 2024 Aug 8;632(8024):451–459.
Mechanism for the initiation of spliceosome disassembly. Vorländer MK, Rothe P et al. Nature. 2024 Aug 8;632(8024):443–450.
Poc1 bridges basal body inner junctions to promote triplet microtubule integrity and connections. Ruehle MD, Li S et al. J Cell Biol. 2024 Aug 5;223(8):e202311104.
Structure-guided discovery of ancestral CRISPR-Cas13 ribonucleases. Yoon PH, Zhang Z et al. Science. 2024 Aug 2;385(6708):538-543.
Likelihood-based interactive local docking into cryo-EM maps in ChimeraX. Read RJ, Pettersen EF et al. Acta Crystallogr D Struct Biol. 2024 Aug 1;80(Pt 8):588-598.
High-resolution yeast actin structures indicate the molecular mechanism of actin filament stiffening by cations. Xu XP, Cao W et al. Commun Chem. 2024 Jul 30;7(1):164.
Structure and topography of the synaptic V-ATPase-synaptophysin complex. Wang C, Jiang W et al. Nature. 2024 Jul 25;631(8022):899–904.
CryoET of β-amyloid and tau within postmortem Alzheimer's disease brain. Gilbert MAG, Fatima N et al. Nature. 2024 Jul 25;631(8022):913–919.
Purification and cryo-electron microscopy analysis of bacterial appendages. Sanchez JC, Baumgardt JK, Wright ER. Bio Protoc. 2024 Jul 20;14(14):e5032.
Multiscale photocatalytic proximity labeling reveals cell surface neighbors on and between cells. Lin Z, Schaefer K et al. Science. 2024 Jul 19;385(6706):eadl5763.
Phage anti-CRISPR control by an RNA- and DNA-binding helix-turn-helix protein. Birkholz N, Kamata K et al. Nature. 2024 Jul 18;631(8021):670-677.
Computational design of soluble and functional membrane protein analogues. Goverde CA, Pacesa M et al. Nature. 2024 Jul 11;631(8020):449–458.
Inhibition of M. tuberculosis and human ATP synthase by BDQ and TBAJ-587. Zhang Y, Lai Y et al. Nature. 2024 Jul 11;631(8020):409–414.
A metabolic dependency of EBV can be targeted to hinder B cell transformation. Müller-Durovic B, Jäger J et al. Science. 2024 Jul 5;385(6704):eadk4898.
An alternative broad-specificity pathway for glycan breakdown in bacteria. Nasseri SA, Lazarski AC et al. Nature. 2024 Jul 4;631(8019):199–206.
Molecular plasticity of herpesvirus nuclear egress analysed in situ. Pražák V, Mironova Y et al. Nat Microbiol. 2024 Jul;9(7):1842-1855.
A neutralizing antibody prevents postfusion transition of measles virus fusion protein. Zyla DS, Della Marca R et al. Science. 2024 Jun 28;384(6703):eadm8693.
Plasmid targeting and destruction by the DdmDE bacterial defence system. Bravo JPK, Ramos DA et al. Nature. 2024 Jun 27;630(8018):961–967.
Structural mechanism of bridge RNA-guided recombination. Hiraizumi M, Perry NT et al. Nature. 2024 Jun 27;630(8018):994-1002.
AlphaFold2 structures guide prospective ligand discovery. Lyu J, Kapolka N et al. Science. 2024 Jun 21;384(6702):eadn6354.
Cryo-electron microscopy reveals hydrogen positions and water networks in photosystem II. Hussein R, Graça A et al. Science. 2024 Jun 21;384(6702):1349-1355.
Structural analysis of the dynamic ribosome-translocon complex. Lewis AJO, Zhong F et al. eLife. 2024 Jun 18;13:RP95814.
Molecular mechanism of the ischemia-induced regulatory switch in mammalian complex I. Grba DN, Wright JJ et al. Science. 2024 Jun 14;384(6701):1247-1253.
Molecular mechanism of choline and ethanolamine transport in humans. Ri K, Weng TH et al. Nature. 2024 Jun 13;630(8016):501–508.
Pro-CRISPR PcrIIC1-associated Cas9 system for enhanced bacterial immunity. Zhang S, Sun A et al. Nature. 2024 Jun 13;630(8016):484–492.
Structures of human γδ T cell receptor-CD3 complex. Xin W, Huang B et al. Nature. 2024 Jun 6;629(8015):222–229.
Dimerization and antidepressant recognition at noradrenaline transporter. Zhang H, Yin YL et al. Nature. 2024 Jun 6;629(8015):247–254.
Membraneless channels sieve cations in ammonia-oxidizing marine archaea. von Kügelgen A, Cassidy CK et al. Nature. 2024 Jun 6;629(8015):230–236.
The intrinsic substrate specificity of the human tyrosine kinome. Yaron-Barir TM, Joughin BA et al. Nature. 2024 May 30;629(8014):1174–1181.
Time-resolved cryo-EM of G-protein activation by a GPCR. Papasergi-Scott MM, Pérez-Hernández G et al. Nature. 2024 May 30;629(8014):1182–1191.
Computationally restoring the potency of a clinical antibody against Omicron. Desautels TA, Arrildt KT et al. Nature. 2024 May 23;629(8013):878–885.
Mechanism of single-stranded DNA annealing by RAD52-RPA complex. Liang CC, Greenhough LA et al. Nature. 2024 May 16;629(8012):697–703.
Structural and functional characterization of the interaction between the influenza A virus RNA polymerase and the CTD of host RNA polymerase II. Keown J, Baazaoui A et al. J Virol. 2024 May 14;98(5):e0013824.
Structures and activation mechanism of the Gabija anti-phage system. Li J, Cheng R et al. Nature. 2024 May 9;629(8011):467–473.
Nanobody repertoire generated against the spike protein of ancestral SARS-CoV-2 remains efficacious against the rapidly evolving virus. Ketaren NE, Mast FD et al. eLife. 2024 May 7;12:RP89423.
Streptomyces umbrella toxin particles block hyphal growth of competing species. Zhao Q, Bertolli S et al. Nature. 2024 May 2;629(8010):165–173.
Structural basis of Integrator-dependent RNA polymerase II termination. Fianu I, Ochmann M et al. Nature. 2024 May 2;629(8010):219–227.
Mechanical activation opens a lipid-lined pore in OSCA ion channels. Han Y, Zhou Z et al. Nature. 2024 Apr 25;628(8009):910–918.
Molecular insights into capsular polysaccharide secretion. Kuklewicz J, Zimmer J. Nature. 2024 Apr 25;628(8009):901–909.
Bond analysis in meta- and para-substituted thiophenols: overlap descriptors, local mode analysis, and QTAIM. Barbosa WG, Santos-Jr CV et al. J Mol Model. 2024 Apr 19;30(5):139.
Structure and assembly of a bacterial gasdermin pore. Johnson AG, Mayer ML et al. Nature. 2024 Apr 18;628(8008):657–663.
Bitter taste receptor activation by cholesterol and an intracellular tastant. Kim Y, Gumpper RH et al. Nature. 2024 Apr 18;628(8008):664–671.
Molecular mechanism of actin filament elongation by formins. Oosterheert W, Boiero Sanders M et al. Science. 2024 Apr 12;384(6692):eadn9560.
Structural basis of DNA crossover capture by Escherichia coli DNA gyrase. Vayssières M, Marechal N et al. Science. 2024 Apr 12;384(6692):227-232.
Targeting DCAF5 suppresses SMARCB1-mutant cancer by stabilizing SWI/SNF. Radko-Juettner S, Yue H et al. Nature. 2024 Apr 11;628(8007):442–449.
Removal of Pseudomonas type IV pili by a small RNA virus. Thongchol J, Yu Z et al. Science. 2024 Apr 5;384(6691):eadl0635.
Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Shioi T, Hatazawa S et al. Nature. 2024 Apr 4;628(8006):212–220.
Structural insights into the mechanism of protein transport by the Type 9 Secretion System translocon. Lauber F, Deme JC et al. Nat Microbiol. 2024 Apr;9(4):1089-1102.
Light-sensitive phosphorylation regulates retinal IMPDH1 activity and filament assembly. Calise SJ, O'Neill AG et al. J Cell Biol. 2024 Apr 1;223(4):e202310139.
The CRL5-SPSB3 ubiquitin ligase targets nuclear cGAS for degradation. Xu P, Liu Y et al. Nature. 2024 Mar 28;627(8005):873–879.
Continuous evolution of compact protein degradation tags regulated by selective molecular glues. Mercer JAM, DeCarlo SJ et al. Science. 2024 Mar 15;383(6688):eadk4422.