Member Publications

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130 Member Publications for October 2020

Removal of variable domain N-linked glycosylation as a means to improve the homogeneity of HIV-1 broadly neutralizing antibodies.
1. MAbs - published October 30, 2020
2. Chuang GY, Asokan M, Ivleva VB, Pegu A, Yang ES, Zhang B, Chaudhuri R, Geng H, Lin BC, Louder MK, McKee K, O'Dell S, Wang H, Zhou T, Doria-Rose NA, Kueltzo LA, Lei QP, Mascola JR, Kwong PD
Design and Validation of a Human Brain Endothelial Microvessel-on-a-Chip Open Microfluidic Model Enabling Advanced Optical Imaging.
1. Front Bioeng Biotechnol - published October 29, 2020
2. Salman MM, Marsh G, Kusters I, Delincé M, Di Caprio G, Upadhyayula S, de Nola G, Hunt R, Ohashi KG, Gray T, Shimizu F, Sano Y, Kanda T, Obermeier B, Kirchhausen T
IPSE, an abundant egg-secreted protein of the carcinogenic helminth Schistosoma haematobium, promotes proliferation of bladder cancer cells and angiogenesis.
1. Infect Agent Cancer - published October 26, 2020
2. Mbanefo EC, Agbo CT, Zhao Y, Lamanna OK, Thai KH, Karinshak SE, Khan MA, Fu CL, Odegaard JI, Saltikova IV, Smout MJ, Pennington LF, Nicolls MR, Jardetzky TS, Loukas A, Brindley PJ, Falcone FH, Hsieh MH
A Novel Framework for Characterizing Genomic Haplotype Diversity in the Human Immunoglobulin Heavy Chain Locus.
1. Front Immunol - published October 19, 2020
2. Rodriguez OL, Gibson WS, Parks T, Emery M, Powell J, Strahl M, Deikus G, Auckland K, Eichler EE, Marasco WA, Sebra R, Sharp AJ, Smith ML, Bashir A, Watson CT
Topaz-Denoise: general deep denoising models for cryoEM and cryoET.
1. Nat Commun - published October 15, 2020
2. Bepler T, Kelley K, Noble AJ, Berger B
"The structure of the Type III secretion system export gate with CdsO, an ATPase lever arm".
1. PLoS Pathog - published October 13, 2020
2. Jensen JL, Yamini S, Rietsch A, Spiller BW
SH2 Domain Binding: Diverse FLVRs of Partnership.
1. Front Endocrinol (Lausanne) - published October 12, 2020
2. Jaber Chehayeb R, Boggon TJ
Assessing multiple score functions in Rosetta for drug discovery.
1. PLoS One - published October 12, 2020
2. Smith ST, Meiler J
Garcinol Is an HDAC11 Inhibitor.
1. ACS Chem Biol - published October 9, 2020
2. Son SI, Su D, Ho TT, Lin H
Reconstitution and visualization of HIV-1 capsid-dependent replication and integration in vitro.
1. Science - published October 9, 2020
2. Christensen DE, Ganser-Pornillos BK, Johnson JS, Pornillos O, Sundquist WI
Specific and direct modulation of the interaction between adhesion GPCR GPR56/ADGRG1 and tissue transglutaminase 2 using synthetic ligands.
1. Sci Rep - published October 9, 2020
2. Salzman GS, Zhang S, Fernandez CG, Araç D, Koide S
A versatile soluble siglec scaffold for sensitive and quantitative detection of glycan ligands.
1. Nat Commun - published October 9, 2020
2. Rodrigues E, Jung J, Park H, Loo C, Soukhtehzari S, Kitova EN, Mozaneh F, Daskhan G, Schmidt EN, Aghanya V, Sarkar S, Streith L, St Laurent CD, Nguyen L, Julien JP, West LJ, Williams KC, Klassen JS, Macauley MS
A Structural Model of the Endogenous Human BAF Complex Informs Disease Mechanisms.
1. Cell - published October 9, 2020
2. Mashtalir N, Suzuki H, Farrell DP, Sankar A, Luo J, Filipovski M, D'Avino AR, St Pierre R, Valencia AM, Onikubo T, Roeder RG, Han Y, He Y, Ranish JA, DiMaio F, Walz T, Kadoch C
Vascular Disease and Thrombosis in SARS-CoV-2-Infected Rhesus Macaques.
1. Cell - published October 9, 2020
2. Aid M, Busman-Sahay K, Vidal SJ, Maliga Z, Bondoc S, Starke C, Terry M, Jacobson CA, Wrijil L, Ducat S, Brook OR, Miller AD, Porto M, Pellegrini KL, Pino M, Hoang TN, Chandrashekar A, Patel S, Stephenson K, Bosinger SE, Andersen H, Lewis MG, Hecht JL, Sorger PK, Martinot AJ, Estes JD, Barouch DH
Detection of SARS-CoV-2 with SHERLOCK One-Pot Testing.
1. N Engl J Med - published October 8, 2020
2. Joung J, Ladha A, Saito M, Kim NG, Woolley AE, Segel M, Barretto RPJ, Ranu A, Macrae RK, Faure G, Ioannidi EI, Krajeski RN, Bruneau R, Huang MW, Yu XG, Li JZ, Walker BD, Hung DT, Greninger AL, Jerome KR, Gootenberg JS, Abudayyeh OO, Zhang F
Comparative genomics of Clostridioides difficile toxinotypes identifies module-based toxin gene evolution.
1. Microb Genom - published October 8, 2020
2. Janezic S, Dingle K, Alvin J, Accetto T, Didelot X, Crook DW, Lacy DB, Rupnik M
Concerning P450 evolution: Structural Analyses Support Bacterial Origin of Sterol 14α-Demethylases.
1. Mol Biol Evol - published October 8, 2020
2. Lamb DC, Hargrove TY, Zhao B, Wawrzak Z, Goldstone JV, Nes WD, Kelly SL, Waterman MR, Stegeman JJ, Lepesheva GI
Author Correction: PD-L1-mediated gasdermin C expression switches apoptosis to pyroptosis in cancer cells and facilitates tumour necrosis.
1. Nat Cell Biol - published October 8, 2020
2. Hou J, Zhao R, Xia W, Chang CW, You Y, Hsu JM, Nie L, Chen Y, Wang YC, Liu C, Wang WJ, Wu Y, Ke B, Hsu JL, Huang K, Ye Z, Yang Y, Xia X, Li Y, Li CW, Shao B, Tainer JA, Hung MC
Structural characterization of the ICOS/ICOS-L immune complex reveals high molecular mimicry by therapeutic antibodies.
1. Nat Commun - published October 8, 2020
2. Rujas E, Cui H, Sicard T, Semesi A, Julien JP
Persistence and decay of human antibody responses to the receptor binding domain of SARS-CoV-2 spike protein in COVID-19 patients.
1. Sci Immunol - published October 8, 2020
2. Iyer AS, Jones FK, Nodoushani A, Kelly M, Becker M, Slater D, Mills R, Teng E, Kamruzzaman M, Garcia-Beltran WF, Astudillo M, Yang D, Miller TE, Oliver E, Fischinger S, Atyeo C, Iafrate AJ, Calderwood SB, Lauer SA, Yu J, Li Z, Feldman J, Hauser BM, Caradonna TM, Branda JA, Turbett SE, LaRocque RC, Mellon G, Barouch DH, Schmidt AG, Azman AS, Alter G, Ryan ET, Harris JB, Charles RC
CryoEM structure of the type IVa pilus secretin required for natural competence in Vibrio cholerae.
1. Nat Commun - published October 8, 2020
2. Weaver SJ, Ortega DR, Sazinsky MH, Dalia TN, Dalia AB, Jensen GJ
Persistence of serum and saliva antibody responses to SARS-CoV-2 spike antigens in COVID-19 patients.
1. Sci Immunol - published October 8, 2020
2. Isho B, Abe KT, Zuo M, Jamal AJ, Rathod B, Wang JH, Li Z, Chao G, Rojas OL, Bang YM, Pu A, Christie-Holmes N, Gervais C, Ceccarelli D, Samavarchi-Tehrani P, Guvenc F, Budylowski P, Li A, Paterson A, Yue FY, Marin LM, Caldwell L, Wrana JL, Colwill K, Sicheri F, Mubareka S, Gray-Owen SD, Drews SJ, Siqueira WL, Barrios-Rodiles M, Ostrowski M, Rini JM, Durocher Y, McGeer AJ, Gommerman JL, Gingras AC
A Sweep of Earth's Virome Reveals Host-Guided Viral Protein Structural Mimicry and Points to Determinants of Human Disease.
1. Cell Syst - published October 8, 2020
2. Lasso G, Honig B, Shapira SD
Inhibition of Macrophage Migration Inhibitory Factor by a Chimera of Two Allosteric Binders.
1. ACS Med Chem Lett - published October 8, 2020
2. Cirillo PF, Asojo OA, Khire U, Lee Y, Mootien S, Hegan P, Sutherland AG, Peterson-Roth E, Ledizet M, Koski RA, Anthony KG
Discovery of a Cyclic Choline Analog That Inhibits Anaerobic Choline Metabolism by Human Gut Bacteria.
1. ACS Med Chem Lett - published October 8, 2020
2. Bollenbach M, Ortega M, Orman M, Drennan CL, Balskus EP
Functional insights from biophysical study of TREM2 interactions with apoE and Aβ_1-42.
1. Alzheimers Dement - published October 8, 2020
2. Kober DL, Stuchell-Brereton MD, Kluender CE, Dean HB, Strickland MR, Steinberg DF, Nelson SS, Baban B, Holtzman DM, Frieden C, Alexander-Brett J, Roberson ED, Song Y, Brett TJ
Coordination of Grp1 recruitment mechanisms by its phosphorylation.
1. Mol Biol Cell - published October 7, 2020
2. Li J, Lambright DG, Hsu VW
Extrafollicular B cell responses correlate with neutralizing antibodies and morbidity in COVID-19.
1. Nat Immunol - published October 7, 2020
2. Woodruff MC, Ramonell RP, Nguyen DC, Cashman KS, Saini AS, Haddad NS, Ley AM, Kyu S, Howell JC, Ozturk T, Lee S, Suryadevara N, Case JB, Bugrovsky R, Chen W, Estrada J, Morrison-Porter A, Derrico A, Anam FA, Sharma M, Wu HM, Le SN, Jenks SA, Tipton CM, Staitieh B, Daiss JL, Ghosn E, Diamond MS, Carnahan RH, Crowe JE Jr, Hu WT, Lee FE, Sanz I
A STAT3 palmitoylation cycle promotes T_H17 differentiation and colitis.
1. Nature - published October 7, 2020
2. Zhang M, Zhou L, Xu Y, Yang M, Xu Y, Komaniecki GP, Kosciuk T, Chen X, Lu X, Zou X, Linder ME, Lin H
PilY1 and minor pilins form a complex priming the type IVa pilus in Myxococcus xanthus.
1. Nat Commun - published October 7, 2020
2. Treuner-Lange A, Chang YW, Glatter T, Herfurth M, Lindow S, Chreifi G, Jensen GJ, Søgaard-Andersen L
Microglia-organized scar-free spinal cord repair in neonatal mice.
1. Nature - published October 7, 2020
2. Li Y, He X, Kawaguchi R, Zhang Y, Wang Q, Monavarfeshani A, Yang Z, Chen B, Shi Z, Meng H, Zhou S, Zhu J, Jacobi A, Swarup V, Popovich PG, Geschwind DH, He Z
Computationally Designed Cyclic Peptides Derived from an Antibody Loop Increase Breadth of Binding for Influenza Variants.
1. Structure - published October 6, 2020
2. Sevy AM, Gilchuk IM, Brown BP, Bozhanova NG, Nargi R, Jensen M, Meiler J, Crowe JE Jr
Mechanism and evolution of the Zn-fingernail required for interaction of VARP with VPS29.
1. Nat Commun - published October 6, 2020
2. Crawley-Snowdon H, Yang JC, Zaccai NR, Davis LJ, Wartosch L, Herman EK, Bright NA, Swarbrick JS, Collins BM, Jackson LP, Seaman MNJ, Luzio JP, Dacks JB, Neuhaus D, Owen DJ
Uncovering DNA-PKcs ancient phylogeny, unique sequence motifs and insights for human disease.
1. Prog Biophys Mol Biol - published October 6, 2020
2. Lees-Miller JP, Cobban A, Katsonis P, Bacolla A, Tsutakawa SE, Hammel M, Meek K, Anderson DW, Lichtarge O, Tainer JA, Lees-Miller SP
Crippling life support for SARS-CoV-2 and other viruses through synthetic lethality.
1. J Cell Biol - published October 5, 2020
2. Mast FD, Navare AT, van der Sloot AM, Coulombe-Huntington J, Rout MP, Baliga NS, Kaushansky A, Chait BT, Aderem A, Rice CM, Sali A, Tyers M, Aitchison JD
Ebola and Marburg virus matrix layers are locally ordered assemblies of VP40 dimers.
1. Elife - published October 5, 2020
2. Wan W, Clarke M, Norris MJ, Kolesnikova L, Koehler A, Bornholdt ZA, Becker S, Ollman-Saphire E, Briggs JA
CD-NTases and nucleotide second messenger signaling.
1. Curr Biol - published October 5, 2020
2. Lowey B, Kranzusch PJ
Shared requirements for key residues in the antibiotic resistance enzymes ErmC and ErmE suggest a common mode of RNA recognition.
1. J Biol Chem - published October 5, 2020
2. Rowe SJ, Mecaskey RJ, Nasef M, Talton RC, Sharkey RE, Halliday JC, Dunkle JA
Reply to: "Does PCNA diffusion on DNA follow a rotation-coupled translation mechanism?"
1. Nat Commun - published October 5, 2020
2. De March M, Onesti S, De Biasio A
ACE2-containing extracellular vesicles and exomeres bind the SARS-CoV-2 spike protein.
1. Gastroenterology - published October 3, 2020
2. Zhang Q, Jeppesen DK, Higginbotham JN, Franklin JL, Crowe JE Jr, Coffey RJ
Unveiling the cryo-EM structure of retromer.
1. Biochem Soc Trans - published October 3, 2020
2. Chandra M, Kendall AK, Jackson LP
Microchip-Based Structure Determination of Disease-Relevant p53.
1. Anal Chem - published October 3, 2020
2. Solares MJ, Jonaid GM, Luqiu WY, Liang Y, Evans MC, Dearnaley WJ, Sheng Z, Kelly DF
Molecular Architecture of Early Dissemination and Massive Second Wave of the SARS-CoV-2 Virus in a Major Metropolitan Area.
1. mBio - published October 3, 2020
2. Long SW, Olsen RJ, Christensen PA, Bernard DW, Davis JJ, Shukla M, Nguyen M, Saavedra MO, Yerramilli P, Pruitt L, Subedi S, Kuo HC, Hendrickson H, Eskandari G, Nguyen HAT, Long JH, Kumaraswami M, Goike J, Boutz D, Gollihar J, McLellan JS, Chou CW, Javanmardi K, Finkelstein IJ, Musser JM
Structures of the Mononegavirales Polymerases.
1. J Virol - published October 2, 2020
2. Liang B
Serological Screening of Influenza A Virus Antibodies in Cats and Dogs Indicates Frequent Infection with Different Subtypes.
1. J Clin Microbiol - published October 2, 2020
2. Zhao S, Schuurman N, Tieke M, Quist B, Zwinkels S, van Kuppeveld FJM, de Haan CAM, Egberink H
Editorial: Multiscale Modeling From Macromolecules to Cell: Opportunities and Challenges of Biomolecular Simulations.
1. Front Mol Biosci - published October 2, 2020
2. Palermo G, Bonvin AMJJ, Dal Peraro M, Amaro RE, Tozzini V
A time-resolved cryo-EM Study of S. cerevisiae 80S Ribosome Protein Composition in Response to a Change in Carbon Source.
1. Proteomics - published October 2, 2020
2. Sun M, Shen B, Li W, Samir P, Browne CM, Link AJ, Frank J
Antibiotic export by MexB multidrug efflux transporter is allosterically controlled by a MexA-OprM chaperone-like complex.
1. Nat Commun - published October 2, 2020
2. Glavier M, Puvanendran D, Salvador D, Decossas M, Phan G, Garnier C, Frezza E, Cece Q, Schoehn G, Picard M, Taveau JC, Daury L, Broutin I, Lambert O
The Dark Kinase Knowledgebase: an online compendium of knowledge and experimental results of understudied kinases.
1. Nucleic Acids Res - published October 2, 2020
2. Berginski ME, Moret N, Liu C, Goldfarb D, Sorger PK, Gomez SM
Health Care Associated Outbreak of SARS CoV2 in a Rural Hospital - Missouri, March 2020.
1. Infect Control Hosp Epidemiol - published October 2, 2020
2. Turabelidze G, Faulconer BC, Lawrence SJ, Pierce A, Smith BK, Fremont DH
Organoid culture system for patient-derived lung metastatic osteosarcoma.
1. Med Oncol - published October 2, 2020
2. He A, Huang Y, Cheng W, Zhang D, He W, Bai Y, Gu C, Ma Z, He Z, Si G, Chen B, Breault DT, Dong M, Xiang D
CHIP phosphorylation by protein kinase G enhances protein quality control and attenuates cardiac ischemic injury.
1. Nat Commun - published October 2, 2020
2. Ranek MJ, Oeing C, Sanchez-Hodge R, Kokkonen-Simon KM, Dillard D, Aslam MI, Rainer PP, Mishra S, Dunkerly-Eyring B, Holewinski RJ, Virus C, Zhang H, Mannion MM, Agrawal V, Hahn V, Lee DI, Sasaki M, Van Eyk JE, Willis MS, Page RC, Schisler JC, Kass DA
A broadly neutralizing macaque monoclonal antibody against the HIV-1 V3-Glycan patch.
1. Elife - published October 2, 2020
2. Wang Z, Barnes CO, Gautam R, Cetrulo Lorenzi JC, Mayer CT, Oliveira TY, Ramos V, Cipolla M, Gordon KM, Gristick HB, West AP, Nishimura Y, Raina H, Seaman MS, Gazumyan A, Martin M, Bjorkman PJ, Nussenzweig MC, Escolano A
Author Correction: SARS-CoV-2 Nsp1 binds the ribosomal mRNA channel to inhibit translation.
1. Nat Struct Mol Biol - published October 2, 2020
2. Schubert K, Karousis ED, Jomaa A, Scaiola A, Echeverria B, Gurzeler LA, Leibundgut M, Thiel V, Mühlemann O, Ban N
Structural Insights into the Recognition of Mono- and Diacetylated Histones by the ATAD2B Bromodomain.
1. J Med Chem - published October 2, 2020
2. Lloyd JT, McLaughlin K, Lubula MY, Gay JC, Dest A, Gao C, Phillips M, Tonelli M, Cornilescu G, Marunde MR, Evans CM, Boyson SP, Carlson S, Keogh MC, Markley JL, Frietze S, Glass KC
Developmental, cellular, and behavioral phenotypes in a mouse model of congenital hypoplasia of the dentate gyrus.
1. Elife - published October 2, 2020
2. Rattner A, Terrillion CE, Jou C, Kleven T, Hu SF, Williams J, Hou Z, Aggarwal M, Mori S, Shin G, Goff LA, Witter MP, Pletnikov M, Fenton AA, Nathans J
Carboxyboronate as a Versatile in situ CO surrogate in Palladium-Catalyzed Carbonylative Transformations.
1. Angew Chem Int Ed Engl - published October 2, 2020
2. Yudin AK, Tien CH, Trofimova A, Holownia A, Kwak BS, Larson RT
Immune receptor inhibition through enforced phosphatase recruitment.
1. Nature - published October 2, 2020
2. Fernandes RA, Su L, Nishiga Y, Ren J, Bhuiyan AM, Cheng N, Kuo CJ, Picton LK, Ohtsuki S, Majzner RG, Rietberg SP, Mackall CL, Yin Q, Ali LR, Yang X, Savvides CS, Sage J, Dougan M, Garcia KC
The structural basis of herpesvirus entry.
1. Nat Rev Microbiol - published October 2, 2020
2. Connolly SA, Jardetzky TS, Longnecker R
Engineered ACE2 receptor traps potently neutralize SARS-CoV-2.
1. Proc Natl Acad Sci U S A - published October 2, 2020
2. Glasgow A, Glasgow J, Limonta D, Solomon P, Lui I, Zhang Y, Nix MA, Rettko NJ, Zha S, Yamin R, Kao K, Rosenberg OS, Ravetch JV, Wiita AP, Leung KK, Lim SA, Zhou XX, Hobman TC, Kortemme T, Wells JA
Sulfotyrosine-Mediated Recognition of Human Thrombin by a Tsetse Fly Anticoagulant Mimics Physiological Substrates.
1. Cell Chem Biol - published October 2, 2020
2. Calisto BM, Ripoll-Rozada J, Dowman LJ, Franck C, Agten SM, Parker BL, Veloso RC, Vale N, Gomes P, de Sanctis D, Payne RJ, Pereira PJB
Allosteric mechanism for KCNE1 modulation of KCNQ1 potassium channel activation.
1. Elife - published October 2, 2020
2. Kuenze G, Vanoye CG, Desai RR, Adusumilli S, Brewer KR, Woods H, McDonald EF, Sanders CR, George AL, Meiler J
Post-Catalytic Complexes with Emtricitabine or Stavudine and HIV-1 Reverse Transcriptase Reveal New Mechanistic Insights for Nucleotide Incorporation and Drug Resistance.
1. Molecules - published October 2, 2020
2. Bertoletti N, Chan AH, Schinazi RF, Anderson KS
SARS-CoV-2 Orf6 hijacks Nup98 to block STAT nuclear import and antagonize interferon signaling.
1. Proc Natl Acad Sci U S A - published October 2, 2020
2. Miorin L, Kehrer T, Sanchez-Aparicio MT, Zhang K, Cohen P, Patel RS, Cupic A, Makio T, Mei M, Moreno E, Danziger O, White KM, Rathnasinghe R, Uccellini M, Gao S, Aydillo T, Mena I, Yin X, Martin-Sancho L, Krogan NJ, Chanda SK, Schotsaert M, Wozniak RW, Ren Y, Rosenberg BR, Fontoura BMA, García-Sastre A
Structures of ABC transporters: handle with care.
1. FEBS Lett - published October 2, 2020
2. Lewinson O, Orelle C, Seeger MA
A platform incorporating trimeric antigens into self-assembling nanoparticles reveals SARS-CoV-2-spike nanoparticles to elicit substantially higher neutralizing responses than spike alone.
1. Sci Rep - published October 2, 2020
2. Zhang B, Chao CW, Tsybovsky Y, Abiona OM, Hutchinson GB, Moliva JI, Olia AS, Pegu A, Phung E, Stewart-Jones GBE, Verardi R, Wang L, Wang S, Werner A, Yang ES, Yap C, Zhou T, Mascola JR, Sullivan NJ, Graham BS, Corbett KS, Kwong PD
Letter to the Editor: Distanced Inspiration from the Career of Stephen H. White.
1. J Membr Biol - published October 2, 2020
2. Sanders CR
Crystal structure of a soluble APOBEC3G variant suggests ssDNA to bind in a channel that extends between the two domains.
1. J Mol Biol - published October 2, 2020
2. Maiti A, Myint W, Delviks-Frankenberry KA, Hou S, Kanai T, Balachandran V, Sierra Rodriguez C, Tripathi R, Kurt Yilmaz N, Pathak VK, Schiffer CA, Matsuo H
COVID-19 neutralizing antibodies predict disease severity and survival.
1. medRxiv - published October 2, 2020
2. Garcia-Beltran WF, Lam EC, Astudillo MG, Yang D, Miller TE, Feldman J, Hauser BM, Caradonna TM, Clayton KL, Nitido AD, Murali MR, Alter G, Charles RC, Dighe A, Branda JA, Lennerz JK, Lingwood D, Schmidt AG, Iafrate AJ, Balazs AB
Molecular Regulation of the Polycomb Repressive-Deubiquitinase.
1. Int J Mol Sci - published October 2, 2020
2. Reddington CJ, Fellner M, Burgess AE, Mace PD
Molecular Dynamics Reveals a DNA-Induced Dynamic Switch Triggering Activation of CRISPR-Cas12a.
1. J Chem Inf Model - published October 2, 2020
2. Saha A, Arantes PR, Hsu RV, Narkhede YB, Jinek M, Palermo G
RNA-PROTACs - degraders of RNA-binding proteins.
1. Angew Chem Int Ed Engl - published October 2, 2020
2. Ghidini A, Cléry A, Halloy F, Allain FHT, Hall J
Identification of a degradation signal at the carboxy terminus of SREBP2: A new role for this domain in cholesterol homeostasis.
1. Proc Natl Acad Sci U S A - published October 2, 2020
2. Kober DL, Xu S, Li S, Bajaj B, Liang G, Rosenbaum DM, Radhakrishnan A
Improving homology modeling from low-sequence identity templates in Rosetta: A case study in GPCRs.
1. PLoS Comput Biol - published October 2, 2020
2. Bender BJ, Marlow B, Meiler J
Publisher Correction: CryoEM structure of the type IVa pilus secretin required for natural competence in Vibrio cholera.
1. Nat Commun - published October 2, 2020
2. Weaver SJ, Ortega DR, Sazinsky MH, Dalia TN, Dalia AB, Jensen GJ
Correction for Lu et al., "Shedding-Resistant HIV-1 Envelope Glycoproteins Adopt Downstream Conformations That Remain Responsive to Conformation-Preferring Ligands".
1. J Virol - published October 2, 2020
2. Lu M, Ma X, Reichard N, Terry DS, Arthos J, Smith AB 3rd, Sodroski JG, Blanchard SC, Mothes W
Receptor-Driven ERK Pulses Reconfigure MAPK Signaling and Enable Persistence of Drug-Adapted BRAF-Mutant Melanoma Cells.
1. Cell Syst - published October 2, 2020
2. Gerosa L, Chidley C, Fröhlich F, Sanchez G, Lim SK, Muhlich J, Chen JY, Vallabhaneni S, Baker GJ, Schapiro D, Atanasova MI, Chylek LA, Shi T, Yi L, Nicora CD, Claas A, Ng TSC, Kohler RH, Lauffenburger DA, Weissleder R, Miller MA, Qian WJ, Wiley HS, Sorger PK
PDB-tools web: A user-friendly interface for the manipulation of PDB files.
1. Proteins - published October 2, 2020
2. Jiménez-García B, Teixeira JMC, Trellet M, Rodrigues JPGLM, Bonvin AMJJ
Targeted deletions of complement lectin pathway genes improve outcome in traumatic brain injury, with MASP-2 playing a major role.
1. Acta Neuropathol Commun - published October 2, 2020
2. Mercurio D, Oggioni M, Fumagalli S, Lynch NJ, Roscher S, Minuta D, Perego C, Ippati S, Wallis R, Schwaeble WJ, De Simoni MG
Fragment- and structure-based drug discovery for developing therapeutic agents targeting the DNA Damage Response.
1. Prog Biophys Mol Biol - published October 2, 2020
2. Wilson DM 3rd, Deacon AM, Duncton MAJ, Pellicena P, Georgiadis MM, Yeh AP, Arvai AS, Moiani D, Tainer JA, Das D
RUNX3 methylation drives hypoxia-induced cell proliferation and antiapoptosis in early tumorigenesis.
1. Cell Death Differ - published October 2, 2020
2. Lee SH, Hyeon DY, Yoon SH, Jeong JH, Han SM, Jang JW, Nguyen MP, Chi XZ, An S, Hyun KG, Jung HJ, Song JJ, Bae SC, Kim WH, Hwang D, Lee YM
Clinical outcomes of dialysis patients with COVID-19 in the initial phase of the COVID-19 outbreak in Wuhan, China.
1. Int Urol Nephrol - published October 2, 2020
2. Zeng X, Huang X, Xu L, Xiao J, Gu L, Wang Y, Tuo Y, Fang X, Wang W, Li N, Xiao W, Yang Y, Gong P, Song W, Gao J, He X, Huang S, Zeng Y, Wei L, Chen W
Diverse and unified mechanisms of transcription initiation in bacteria.
1. Nat Rev Microbiol - published October 2, 2020
2. Chen J, Boyaci H, Campbell EA
Beyond Shielding: The Roles of Glycans in the SARS-CoV-2 Spike Protein.
1. ACS Cent Sci - published October 2, 2020
2. Casalino L, Gaieb Z, Goldsmith JA, Hjorth CK, Dommer AC, Harbison AM, Fogarty CA, Barros EP, Taylor BC, McLellan JS, Fadda E, Amaro RE
Role of Aberrant Spontaneous Neurotransmission in SNAP25-Associated Encephalopathies.
1. Neuron - published October 2, 2020
2. Alten B, Zhou Q, Shin OH, Esquivies L, Lin PY, White KI, Sun R, Chung WK, Monteggia LM, Brunger AT, Kavalali ET
Understanding Docking Complexes of Macromolecules Using HADDOCK: The Synergy between Experimental Data and Computations.
1. Bio Protoc - published October 2, 2020
2. Saponaro A, Maione V, Bonvin AMJJ, Cantini F
A click-flipped enzyme substrate boosts the performance of the diagnostic screening for Hunter syndrome.
1. Chem Sci - published October 2, 2020
2. Schwarz M, Skrinjar P, Fink MJ, Kronister S, Mechtler T, Koukos PI, Bonvin AMJJ, Kasper DC, Mikula H
Conserved strategies for pathogen evasion of cGAS-STING immunity.
1. Curr Opin Immunol - published October 1, 2020
2. Eaglesham JB, Kranzusch PJ
Bifunctional Nitrone-Conjugated Secondary Metabolite Targeting the Ribosome.
1. J Am Chem Soc - published October 1, 2020
2. Limbrick EM, Graf M, Derewacz DK, Nguyen F, Spraggins JM, Wieland M, Ynigez-Gutierrez AE, Reisman BJ, Zinshteyn B, McCulloch KM, Iverson TM, Green R, Wilson DN, Bachmann BO
Dynamic elements of replication protein A at the crossroads of DNA replication, recombination, and repair.
1. Crit Rev Biochem Mol Biol - published October 1, 2020
2. Caldwell CC, Spies M
STING cyclic dinucleotide sensing originated in bacteria.
1. Nature - published October 1, 2020
2. Morehouse BR, Govande AA, Millman A, Keszei AFA, Lowey B, Ofir G, Shao S, Sorek R, Kranzusch PJ
The model structure of the copper-dependent ammonia monooxygenase.
1. J Biol Inorg Chem - published October 1, 2020
2. Musiani F, Broll V, Evangelisti E, Ciurli S
Prion biology: implications for Alzheimer's disease therapeutics.
1. Lancet Neurol - published October 1, 2020
2. Condello C, DeGrado WF, Prusiner SB
Cryo-electron microscopy structure of the 70S ribosome from Enterococcus faecalis.
1. Sci Rep - published October 1, 2020
2. Murphy EL, Singh KV, Avila B, Kleffmann T, Gregory ST, Murray BE, Krause KL, Khayat R, Jogl G
Human ferroportin mediates proton-coupled active transport of iron.
1. Blood Adv - published October 1, 2020
2. Li S, Yang Y, Li W
The Huntingtin-interacting protein SETD2/HYPB is an actin lysine methyltransferase.
1. Sci Adv - published October 1, 2020
2. Seervai RNH, Jangid RK, Karki M, Tripathi DN, Jung SY, Kearns SE, Verhey KJ, Cianfrocco MA, Millis BA, Tyska MJ, Mason FM, Rathmell WK, Park IY, Dere R, Walker CL
The N-terminal length and side-chain composition of CXCL13 affect crystallization, structure and functional activity.
1. Acta Crystallogr D Struct Biol - published October 1, 2020
2. Rosenberg EM Jr, Herrington J, Rajasekaran D, Murphy JW, Pantouris G, Lolis EJ
Sex Does Not Influence Visual Outcomes After Blast-Mediated Traumatic Brain Injury but IL-1 Pathway Mutations Confer Partial Rescue.
1. Invest Ophthalmol Vis Sci - published October 1, 2020
2. Evans LP, Boehme N, Wu S, Burghardt EL, Akurathi A, Todd BP, Newell EA, Ferguson PJ, Mahajan VB, Dutca LM, Harper MM, Bassuk AG
The transport mechanism of P4 ATPase lipid flippases.
1. Biochem J - published October 1, 2020
2. López-Marqués RL, Gourdon P, Günther Pomorski T, Palmgren M
SARS-CoV-2 neutralizing antibody structures inform therapeutic strategies.
1. Nature - published October 1, 2020
2. Barnes CO, Jette CA, Abernathy ME, Dam KA, Esswein SR, Gristick HB, Malyutin AG, Sharaf NG, Huey-Tubman KE, Lee YE, Robbiani DF, Nussenzweig MC, West AP Jr, Bjorkman PJ
The molecular structure of long non-coding RNAs: emerging patterns and functional implications.
1. Crit Rev Biochem Mol Biol - published October 1, 2020
2. Chillón I, Marcia M
Mechanism of efficient double-strand break repair by a long non-coding RNA.
1. Nucleic Acids Res - published October 1, 2020
2. Thapar R, Wang JL, Hammel M, Ye R, Liang K, Sun C, Hnizda A, Liang S, Maw SS, Lee L, Villarreal H, Forrester I, Fang S, Tsai MS, Blundell TL, Davis AJ, Lin C, Lees-Miller SP, Strick TR, Tainer JA
Comparison of tyrosine kinase domain properties for the neurotrophin receptors TrkA and TrkB.
1. Biochem J - published October 1, 2020
2. Artim SC, Kiyatkin A, Lemmon MA
Albumin-binding domain extends half-life of glucagon-like peptide-1.
1. Eur J Pharmacol - published October 1, 2020
2. Tan H, Su W, Zhang W, Zhang J, Sattler M, Zou P
Animal-free alternatives and the antibody iceberg.
1. Nat Biotechnol - published October 1, 2020
2. Gray A, Bradbury ARM, Knappik A, Plückthun A, Borrebaeck CAK, Dübel S
Retinal Manifestations of Mitochondrial Oxidative Phosphorylation Disorders.
1. Invest Ophthalmol Vis Sci - published October 1, 2020
2. Oh JK, Lima de Carvalho JR Jr, Nuzbrokh Y, Ryu J, Chemudupati T, Mahajan VB, Sparrow JR, Tsang SH
Inherited myeloproliferative neoplasm risk affects haematopoietic stem cells.
1. Nature - published October 1, 2020
2. Bao EL, Nandakumar SK, Liao X, Bick AG, Karjalainen J, Tabaka M, Gan OI, Havulinna AS, Kiiskinen TTJ, Lareau CA, de Lapuente Portilla AL, Li B, Emdin C, Codd V, Nelson CP, Walker CJ, Churchhouse C, de la Chapelle A, Klein DE, Nilsson B, Wilson PWF, Cho K, Pyarajan S, Gaziano JM, Samani NJ, FinnGen., 23andMe Research Team., Regev A, Palotie A, Neale BM, Dick JE, Natarajan P, O'Donnell CJ, Daly MJ, Milyavsky M, Kathiresan S, Sankaran VG
Structural analysis of different LINC complexes reveals distinct binding modes.
1. J Mol Biol - published October 1, 2020
2. Cruz VE, Esra Demircioglu F, Schwartz TU
Mechanism of strand exchange from RecA-DNA synaptic and D-loop structures.
1. Nature - published October 1, 2020
2. Yang H, Zhou C, Dhar A, Pavletich NP
Autophagy unleashes noncanonical microRNA functions.
1. Autophagy - published October 1, 2020
2. Santovito D, Egea V, Bidzhekov K, Natarelli L, Mourão A, Blanchet X, Wichapong K, Aslani M, Brunßen C, Horckmans M, Hristov M, Geerlof A, Lutgens E, Daemen MJAP, Hackeng T, Ries C, Chavakis T, Morawietz H, Naumann R, Hundelshausen PV, Steffens S, Duchêne J, Megens RTA, Sattler M, Weber C
Comparing the Use of Spatially Explicit Indicators and Conventional Indicators in the Evaluation of Healthy Cities: A Case Study in Shenzhen, China.
1. Int J Environ Res Public Health - published October 1, 2020
2. Yang J, Luo X, Xiao Y, Shen S, Su M, Bai Y, Gong P
Active coacervate droplets as a model for membraneless organelles and protocells.
1. Nat Commun - published October 1, 2020
2. Donau C, Späth F, Sosson M, Kriebisch BAK, Schnitter F, Tena-Solsona M, Kang HS, Salibi E, Sattler M, Mutschler H, Boekhoven J
Keeping innate immune response in check: when cGAS meets the nucleosome.
1. Cell Res - published October 1, 2020
2. Xie W, Patel DJ
The dynamics of linear polyubiquitin.
1. Sci Adv - published October 1, 2020
2. Jussupow A, Messias AC, Stehle R, Geerlof A, Solbak SMØ, Paissoni C, Bach A, Sattler M, Camilloni C
Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry.
1. Structure - published October 1, 2020
2. Leitner A, Bonvin AMJJ, Borchers CH, Chalkley RJ, Chamot-Rooke J, Combe CW, Cox J, Dong MQ, Fischer L, Götze M, Gozzo FC, Heck AJR, Hoopmann MR, Huang L, Ishihama Y, Jones AR, Kalisman N, Kohlbacher O, Mechtler K, Moritz RL, Netz E, Novak P, Petrotchenko E, Sali A, Scheltema RA, Schmidt C, Schriemer D, Sinz A, Sobott F, Stengel F, Thalassinos K, Urlaub H, Viner R, Vizcaíno JA, Wilkins MR, Rappsilber J
Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms.
1. Science - published October 1, 2020
2. Gordon DE, Hiatt J, Bouhaddou M, Rezelj VV, Ulferts S, Braberg H, Jureka AS, Obernier K, Guo JZ, Batra J, Kaake RM, Weckstein AR, Owens TW, Gupta M, Pourmal S, Titus EW, Cakir M, Soucheray M, McGregor M, Cakir Z, Jang G, O'Meara MJ, Tummino TA, Zhang Z, Foussard H, Rojc A, Zhou Y, Kuchenov D, Hüttenhain R, Xu J, Eckhardt M, Swaney DL, Fabius JM, Ummadi M, Tutuncuoglu B, Rathore U, Modak M, Haas P, Haas KM, Naing ZZC, Pulido EH, Shi Y, Barrio-Hernandez I, Memon D, Petsalaki E, Dunham A, Marrero MC, Burke D, Koh C, Vallet T, Silvas JA, Azumaya CM, Billesbølle C, Brilot AF, Campbell MG, Diallo A, Dickinson MS, Diwanji D, Herrera N, Hoppe N, Kratochvil HT, Liu Y, Merz GE, Moritz M, Nguyen HC, Nowotny C, Puchades C, Rizo AN, Schulze-Gahmen U, Smith AM, Sun M, Young ID, Zhao J, Asarnow D, Biel J, Bowen A, Braxton JR, Chen J, Chio CM, Chio US, Deshpande I, Doan L, Faust B, Flores S, Jin M, Kim K, Lam VL, Li F, Li J, Li YL, Li Y, Liu X, Lo M, Lopez KE, Melo AA, Moss FR 3rd, Nguyen P, Paulino J, Pawar KI, Peters JK, Pospiech TH Jr, Safari M, Sangwan S, Schaefer K, Thomas PV, Thwin AC, Trenker R, Tse E, Tsui TKM, Wang F, Whitis N, Yu Z, Zhang K, Zhang Y, Zhou F, Saltzberg D, QCRG Structural Biology Consortium., Hodder AJ, Shun-Shion AS, Williams DM, White KM, Rosales R, Kehrer T, Miorin L, Moreno E, Patel AH, Rihn S, Khalid MM, Vallejo-Gracia A, Fozouni P, Simoneau CR, Roth TL, Wu D, Karim MA, Ghoussaini M, Dunham I, Berardi F, Weigang S, Chazal M, Park J, Logue J, McGrath M, Weston S, Haupt R, Hastie CJ, Elliott M, Brown F, Burness KA, Reid E, Dorward M, Johnson C, Wilkinson SG, Geyer A, Giesel DM, Baillie C, Raggett S, Leech H, Toth R, Goodman N, Keough KC, Lind AL, Zoonomia Consortium., Klesh RJ, Hemphill KR, Carlson-Stevermer J, Oki J, Holden K, Maures T, Pollard KS, Sali A, Agard DA, Cheng Y, Fraser JS, Frost A, Jura N, Kortemme T, Manglik A, Southworth DR, Stroud RM, Alessi DR, Davies P, Frieman MB, Ideker T, Abate C, Jouvenet N, Kochs G, Shoichet B, Ott M, Palmarini M, Shokat KM, García-Sastre A, Rassen JA, Grosse R, Rosenberg OS, Verba KA, Basler CF, Vignuzzi M, Peden AA, Beltrao P, Krogan NJ
Engineering Af1521 improves ADP-ribose binding and identification of ADP-ribosylated proteins.
1. Nat Commun - published October 1, 2020
2. Nowak K, Rosenthal F, Karlberg T, Bütepage M, Thorsell AG, Dreier B, Grossmann J, Sobek J, Imhof R, Lüscher B, Schüler H, Plückthun A, Leslie Pedrioli DM, Hottiger MO
A structural and kinetic survey of GH5_4 endoglucanases reveals determinants of broad substrate specificity and opportunities for biomass hydrolysis.
1. J Biol Chem - published October 1, 2020
2. Glasgow EM, Kemna EI, Bingman CA, Ing NL, Deng K, Bianchetti CM, Takasuka TE, Northen TR, Fox BG
Structural and Dynamic Insights into Redundant Function of YTHDF Proteins.
1. J Chem Inf Model - published October 1, 2020
2. Li Y, Bedi RK, Moroz-Omori EV, Caflisch A
Identification of ubiquitin Ser57 kinases regulating the oxidative stress response in yeast.
1. Elife - published October 1, 2020
2. Hepowit NL, Pereira KN, Tumolo JM, Chazin WJ, MacGurn JA
Antibodies targeting epitopes on the cell-surface form of NS1 protect against Zika virus infection during pregnancy.
1. Nat Commun - published October 1, 2020
2. Wessel AW, Kose N, Bombardi RG, Roy V, Chantima W, Mongkolsapaya J, Edeling MA, Nelson CA, Bosch I, Alter G, Screaton GR, Fremont DH, Crowe JE Jr, Diamond MS
Molecular goniometers for single-particle cryo-electron microscopy of DNA-binding proteins.
1. Nat Biotechnol - published October 1, 2020
2. Aksel T, Yu Z, Cheng Y, Douglas SM
The structural basis for Z α₁-antitrypsin polymerization in the liver.
1. Sci Adv - published October 1, 2020
2. Faull SV, Elliston ELK, Gooptu B, Jagger AM, Aldobiyan I, Redzej A, Badaoui M, Heyer-Chauhan N, Rashid ST, Reynolds GM, Adams DH, Miranda E, Orlova EV, Irving JA, Lomas DA
Structure-Based Design with Tag-Based Purification and In-Process Biotinylation Enable Streamlined Development of SARS-CoV-2 Spike Molecular Probes.
1. Cell Rep - published October 1, 2020
2. Zhou T, Teng IT, Olia AS, Cerutti G, Gorman J, Nazzari A, Shi W, Tsybovsky Y, Wang L, Wang S, Zhang B, Zhang Y, Katsamba PS, Petrova Y, Banach BB, Fahad AS, Liu L, Lopez Acevedo SN, Madan B, Oliveira de Souza M, Pan X, Wang P, Wolfe JR, Yin M, Ho DD, Phung E, DiPiazza A, Chang LA, Abiona OM, Corbett KS, DeKosky BJ, Graham BS, Mascola JR, Misasi J, Ruckwardt T, Sullivan NJ, Shapiro L, Kwong PD
A molecular understanding of alphavirus entry.
1. PLoS Pathog - published October 1, 2020
2. Holmes AC, Basore K, Fremont DH, Diamond MS
Substrate recognition by TRIM and TRIM-like proteins in innate immunity.
1. Semin Cell Dev Biol - published October 1, 2020
2. Wang HT, Hur S
Insights into Lysosomal PI(3,5)P₂ Homeostasis from a Structural-Biochemical Analysis of the PIKfyve Lipid Kinase Complex.
1. Mol Cell - published October 1, 2020
2. Lees JA, Li P, Kumar N, Weisman LS, Reinisch KM
K_2P channel C-type gating involves asymmetric selectivity filter order-disorder transitions.
1. Sci Adv - published October 1, 2020
2. Lolicato M, Natale AM, Abderemane-Ali F, Crottès D, Capponi S, Duman R, Wagner A, Rosenberg JM, Grabe M, Minor DL Jr
Allele-specific proximal promoter hypomethylation of the telomerase reverse transcriptase gene (TERT) associates with TERT expression in multiple cancers.
1. Mol Oncol - published October 1, 2020
2. Rowland TJ, Bonham AJ, Cech TR
Channel Embedding for Informative Protein Identification from Highly Multiplexed Images.
1. Med Image Comput Comput Assist Interv - published October 1, 2020
2. Magid SA, Jang WD, Schapiro D, Wei D, Tompkin J, Sorger PK, Pfister H