Member Publications

Jump to specific year:

134 Member Publications for January 2023

Self-recycling and partially conservative replication of mycobacterial methylmannose polysaccharides.
1. Commun Biol - published January 27, 2023
2. Maranha A, Costa M, Ripoll-Rozada J, Manso JA, Miranda V, Mendes VM, Manadas B, Macedo-Ribeiro S, Ventura MR, Pereira PJB, Empadinhas N
ADAR RNA editing on antisense RNAs results in apparent U-to-C base changes on overlapping sense transcripts.
1. Front Cell Dev Biol - published January 23, 2023
2. Pecori R, Chillón I, Lo Giudice C, Arnold A, Wüst S, Binder M, Marcia M, Picardi E, Papavasiliou FN
Editorial: Targeting TNF/TNFR signaling pathways.
1. Front Pharmacol - published January 23, 2023
2. Pan L, Chou JJ, Fu T
The preparation of recombinant arginyltransferase 1 (ATE1) for biophysical characterization.
1. Methods Enzymol - published January 22, 2023
2. Cartwright M, Van V, Smith AT
The DNA binding high mobility group box protein family functionally binds RNA.
1. Wiley Interdiscip Rev RNA - published January 16, 2023
2. Hamilton DJ, Hein AE, Wuttke DS, Batey RT
Preface.
1. Methods Enzymol - published January 14, 2023
2. Tainer JA
Combining NMR, SAXS and SANS to characterize the structure and dynamics of protein complexes.
1. Methods Enzymol - published January 14, 2023
2. Delhommel F, Martínez-Lumbreras S, Sattler M
Applying HT-SAXS to chemical ligand screening.
1. Methods Enzymol - published January 14, 2023
2. Brosey CA, Shen R, Moiani D, Jones DE, Burnett K, Hura GL, Tainer JA
Combining small angle X-ray scattering (SAXS) with protein structure predictions to characterize conformations in solution.
1. Methods Enzymol - published January 14, 2023
2. Chinnam NB, Syed A, Hura GL, Hammel M, Tainer JA, Tsutakawa SE
Temporal dynamics of charge buildup in cryo-electron microscopy.
1. J Struct Biol X - published January 12, 2023
2. Schreiber MT, Maigné A, Beleggia M, Shibata S, Wolf M
Brominated lipid probes expose structural asymmetries in constricted membranes.
1. Nat Struct Mol Biol - published January 9, 2023
2. Moss FR 3rd, Lincoff J, Tucker M, Mohammed A, Grabe M, Frost A
SARS-CoV-2 booster vaccination rescues attenuated IgG1 memory B cell response in primary antibody deficiency patients.
1. Front Immunol - published January 9, 2023
2. Lin FJ, Doss AMA, Davis-Adams HG, Adams LJ, Hanson CH, VanBlargan LA, Liang CY, Chen RE, Monroy JM, Wedner HJ, Kulczycki A, Mantia TL, O'Shaughnessy CC, Raju S, Zhao FR, Rizzi E, Rigell CJ, Dy TB, Kau AL, Ren Z, Turner JS, O'Halloran JA, Presti RM, Fremont DH, Kendall PL, Ellebedy AH, Mudd PA, Diamond MS, Zimmerman O, Laidlaw BJ
Structure-guided mutagenesis of the capsid protein indicates that a nanovirus requires assembled viral particles for systemic infection.
1. PLoS Pathog - published January 9, 2023
2. Trapani S, Bhat EA, Yvon M, Lai-Kee-Him J, Hoh F, Vernerey MS, Pirolles E, Bonnamy M, Schoehn G, Zeddam JL, Blanc S, Bron P
Monoclonal antibodies constructed from COVID-19 convalescent memory B cells exhibit potent binding activity to MERS-CoV spike S2 subunit and other human coronaviruses.
1. Front Immunol - published January 9, 2023
2. Peng Y, Liu Y, Hu Y, Chang F, Wu Q, Yang J, Chen J, Teng S, Zhang J, He R, Wei Y, Bostina M, Luo T, Liu W, Qu X, Li YP
RCSB Protein Data Bank (RCSB.org): delivery of experimentally-determined PDB structures alongside one million computed structure models of proteins from artificial intelligence/machine learning.
1. Nucleic Acids Res - published January 6, 2023
2. Burley SK, Bhikadiya C, Bi C, Bittrich S, Chao H, Chen L, Craig PA, Crichlow GV, Dalenberg K, Duarte JM, Dutta S, Fayazi M, Feng Z, Flatt JW, Ganesan S, Ghosh S, Goodsell DS, Green RK, Guranovic V, Henry J, Hudson BP, Khokhriakov I, Lawson CL, Liang Y, Lowe R, Peisach E, Persikova I, Piehl DW, Rose Y, Sali A, Segura J, Sekharan M, Shao C, Vallat B, Voigt M, Webb B, Westbrook JD, Whetstone S, Young JY, Zalevsky A, Zardecki C
Autoinhibitory structure of preligand association state implicates a new strategy to attain effective DR5 receptor activation.
1. Cell Res - published January 6, 2023
2. Du G, Zhao L, Zheng Y, Belfetmi A, Cai T, Xu B, Heyninck K, Van Den Heede K, Buyse MA, Fontana P, Bowman M, Lin LL, Wu H, Chou JJ
Viral subversion of the cell polarity regulator Scribble.
1. Biochem Soc Trans - published January 6, 2023
2. Javorsky A, Humbert PO, Kvansakul M
Structural analysis of human papillomavirus E6 interactions with Scribble PDZ domains.
1. FEBS J - published January 6, 2023
2. Stewart BZ, Caria S, Humbert PO, Kvansakul M
Fork-remodeling helicase Rad5 preferentially reverses replication forks with gaps in the leading strand.
1. J Mol Biol - published January 6, 2023
2. Ling JA, Gildenberg MS, Honda M, Kondratick CM, Spies M, Todd Washington M
Hierarchical assembly of the MLL1 core complex regulates H3K4 methylation and is dependent on temperature and component concentration.
1. J Biol Chem - published January 6, 2023
2. Namitz KEW, Tan S, Cosgrove MS
Role of Hsp70 in Post-Translational Protein Targeting: Tail-Anchored Membrane Proteins and Beyond.
1. Int J Mol Sci - published January 6, 2023
2. Shan SO
E3-Specific Degrader Discovery by Dynamic Tracing of Substrate Receptor Abundance.
1. J Am Chem Soc - published January 5, 2023
2. Hanzl A, Barone E, Bauer S, Yue H, Nowak RP, Hahn E, Pankevich EV, Koren A, Kubicek S, Fischer ES, Winter GE
Nuclear accumulation of host transcripts during Zika Virus Infection.
1. PLoS Pathog - published January 5, 2023
2. Leon KE, Khalid MM, Flynn RA, Fontaine KA, Nguyen TT, Kumar GR, Simoneau CR, Tomar S, Jimenez-Morales D, Dunlap M, Kaye J, Shah PS, Finkbeiner S, Krogan NJ, Bertozzi C, Carette JE, Ott M
Structural basis of CHMP2A-CHMP3 ESCRT-III polymer assembly and membrane cleavage.
1. Nat Struct Mol Biol - published January 5, 2023
2. Azad K, Guilligay D, Boscheron C, Maity S, De Franceschi N, Sulbaran G, Effantin G, Wang H, Kleman JP, Bassereau P, Schoehn G, Roos WH, Desfosses A, Weissenhorn W
Mechanism of NAIP-NLRC4 inflammasome activation revealed by cryo-EM structure of unliganded NAIP5.
1. Nat Struct Mol Biol - published January 5, 2023
2. Paidimuddala B, Cao J, Nash G, Xie Q, Wu H, Zhang L
A transcription factor atlas of directed differentiation.
1. Cell - published January 5, 2023
2. Joung J, Ma S, Tay T, Geiger-Schuller KR, Kirchgatterer PC, Verdine VK, Guo B, Arias-Garcia MA, Allen WE, Singh A, Kuksenko O, Abudayyeh OO, Gootenberg JS, Fu Z, Macrae RK, Buenrostro JD, Regev A, Zhang F
Mycobacterial helicase Lhr abets resistance to DNA crosslinking agents mitomycin C and cisplatin.
1. Nucleic Acids Res - published January 5, 2023
2. Warren GM, Ejaz A, Fay A, Glickman MS, Shuman S
Insights into the GSDMB-mediated cellular lysis and its targeting by IpaH7.8.
1. Nat Commun - published January 4, 2023
2. Yin H, Zheng J, He Q, Zhang X, Li X, Ma Y, Liang X, Gao J, Kocsis BL, Li Z, Liu X, Alto NM, Li L, Zhang H
RNA targeting unleashes indiscriminate nuclease activity of CRISPR-Cas12a2.
1. Nature - published January 4, 2023
2. Bravo JPK, Hallmark T, Naegle B, Beisel CL, Jackson RN, Taylor DW
Structures and mechanisms of tRNA methylation by METTL1-WDR4.
1. Nature - published January 4, 2023
2. Ruiz-Arroyo VM, Raj R, Babu K, Onolbaatar O, Roberts PH, Nam Y
Structural basis of regulated m(7)G tRNA modification by METTL1-WDR4.
1. Nature - published January 4, 2023
2. Li J, Wang L, Hahn Q, Nowak RP, Viennet T, Orellana EA, Roy Burman SS, Yue H, Hunkeler M, Fontana P, Wu H, Arthanari H, Fischer ES, Gregory RI
Adenosine-Dependent Activation Mechanism of Prodrugs Targeting an Aminoacyl-tRNA Synthetase.
1. J Am Chem Soc - published January 4, 2023
2. Hoffmann G, Le Gorrec M, Mestdach E, Cusack S, Salmon L, Jensen MR, Palencia A
SUMO enhances unfolding of SUMO-polyubiquitin-modified substrates by the Ufd1/Npl4/Cdc48 complex.
1. Proc Natl Acad Sci U S A - published January 3, 2023
2. Lee HG, Lemmon AA, Lima CD
Disruption of nucleosomes by DNA groove binders of clinical significance and implications for chromatin remodeling.
1. Proc Natl Acad Sci U S A - published January 3, 2023
2. Lorch Y, Kornberg RD, Maier-Davis B
The sensor for animal electricity.
1. Proc Natl Acad Sci U S A - published January 3, 2023
2. Sigworth FJ
Structural basis of transition from initiation to elongation in de novo viral RNA-dependent RNA polymerases.
1. Proc Natl Acad Sci U S A - published January 3, 2023
2. Wu J, Wang X, Liu Q, Lu G, Gong P
Social Needs Screening in Hospitalized Pediatric Patients: A Randomized Controlled Trial.
1. Hosp Pediatr - published January 3, 2023
2. Lopez MA, Yu X, Hetrick R, Raman S, Lee J, Hall J, Tran K, Vonasek B, Garg A, Raphael J, Bocchini C
Using machine learning to predict the effects and consequences of mutations in proteins.
1. Curr Opin Struct Biol - published January 3, 2023
2. Diaz DJ, Kulikova AV, Ellington AD, Wilke CO
Structural features of sensory two component systems: a synthetic biology perspective.
1. Biochem J - published January 3, 2023
2. Nieves M, Buschiazzo A, Trajtenberg F
State-specific morphological deformations of the lipid bilayer explain mechanosensitive gating of MscS ion channels.
1. Elife - published January 3, 2023
2. Park YC, Reddy B, Bavi N, Perozo E, Faraldo-Gómez JD
L-form conversion in Gram-positive bacteria enables escape from phage infection.
1. Nat Microbiol - published January 3, 2023
2. Wohlfarth JC, Feldmüller M, Schneller A, Kilcher S, Burkolter M, Meile S, Pilhofer M, Schuppler M, Loessner MJ
LILAC: enhanced actin imaging with an optogenetic Lifeact.
1. Nat Methods - published January 3, 2023
2. Kroll KL, French AR, Sosnick TR, Rock RS
Follistatin forms a stable complex with Inhibin A that does not interfere with Activin A antagonism.
1. Endocrinology - published January 3, 2023
2. Kappes EC, Kattamuri C, Czepnik M, Yarawsky AE, Brûlé E, Wang Y, Ongaro L, Herr AB, Walton KL, Bernard DJ, Thompson TB
Potent Long-Acting Inhibitors Targeting the HIV-1 Capsid Based on a Versatile Quinazolin-4-one Scaffold.
1. J Med Chem - published January 3, 2023
2. Gillis EP, Parcella K, Bowsher M, Cook JH, Iwuagwu C, Naidu BN, Patel M, Peese K, Huang H, Valera L, Wang C, Kieltyka K, Parker DD, Simmermacher J, Arnoult E, Nolte RT, Wang L, Bender JA, Frennesson DB, Saulnier M, Wang AX, Meanwell NA, Belema M, Hanumegowda U, Jenkins S, Krystal M, Kadow JF, Cockett M, Fridell R
Viral immunity: Basic mechanisms and therapeutic applications-a Keystone Symposia report.
1. Ann N Y Acad Sci - published January 3, 2023
2. Cable J, Balachandran S, Daley-Bauer LP, Rustagi A, Antony F, Frere JJ, Strampe J, Kedzierska K, Cannon JL, McGargill MA, Weiskopf D, Mettelman RC, Niessl J, Thomas PG, Briney B, Valkenburg SA, Bloom JD, Bjorkman PJ, Iketani S, Rappazzo CG, Crooks CM, Crofts KF, Pöhlmann S, Krammer F, Sant AJ, Nabel GJ, Schultz-Cherry S
Rapid clonal identification of biallelic CRISPR/Cas9 knock-ins using SNEAK PEEC.
1. Sci Rep - published January 3, 2023
2. Singh S, Banerjee A, Vanden Broeck A, Klinge S
Standardized Reporting on the Preoperative CT Assessment of Potential Living Renal Transplant Donors: Can We Create a Universal Report Standard to Meet the Needs of Transplant Urologists?
1. Can Assoc Radiol J - published January 3, 2023
2. Benhabib H, Crivellaro PS, Osman H, Gunaseelan S, Chung A, Lee JY, Colak E, Leung V, O'Sullivan J, Walsh C, Kielar A
CRISPR-Cas has a new juggling act: interplay between nuclease and protease.
1. Nat Struct Mol Biol - published January 3, 2023
2. Rish AD, Fu TM
A structure-function analysis of chlorophyllase reveals a mechanism for activity regulation dependent on disulfide bonds.
1. J Biol Chem - published January 3, 2023
2. Jo M, Knapp M, Boggs DG, Brimberry M, Donnan PH, Bridwell-Rabb J
The β-latch structural element of the SufS cysteine desulfurase mediates active site accessibility and SufE transpersulfurase positioning.
1. J Biol Chem - published January 3, 2023
2. Gogar RK, Carroll F, Conte JV, Nasef M, Dunkle JA, Frantom PA
Aromatic hydrazides: A potential solution for Acinetobacter baumannii infections.
1. Eur J Med Chem - published January 3, 2023
2. Green KD, Thamban Chandrika N, Vu LY, Pang AH, Tsodikov OV, Garneau-Tsodikova S
Bacteriophages inhibit and evade cGAS-like immune function in bacteria.
1. Cell - published January 3, 2023
2. Huiting E, Cao X, Ren J, Athukoralage JS, Luo Z, Silas S, An N, Carion H, Zhou Y, Fraser JS, Feng Y, Bondy-Denomy J
Factors That Control the Force Needed to Unfold a Membrane Protein in Silico Depend on the Mode of Denaturation.
1. Int J Mol Sci - published January 3, 2023
2. Faruk NF, Peng X, Sosnick TR
High Reflectivity and Thermal Conductivity Ag-Cu Multi-Material Structures Fabricated via Laser Powder Bed Fusion: Formation Mechanisms, Interfacial Characteristics, and Molten Pool Behavior.
1. Micromachines (Basel) - published January 3, 2023
2. Chen Q, Jing Y, Yin J, Li Z, Xiong W, Gong P, Zhang L, Li S, Pan R, Zhao X, Hao L
A 'warhorse-shaped' topology adopted by the m(6)A RNA writer complex.
1. Cell Res - published January 2, 2023
2. Xie W, Patel DJ
Top management team boundary-spanning leadership: Measurement development and its impact on innovative behavior.
1. Front Psychol - published January 2, 2023
2. Liu X, Yu Y, Zhao X, Zhang N
Facile repurposing of peptide-MHC-restricted antibodies for cancer immunotherapy.
1. Nat Biotechnol - published January 2, 2023
2. Yang X, Nishimiya D, Löchte S, Jude KM, Borowska M, Savvides CS, Dougan M, Su L, Zhao X, Piehler J, Garcia KC
In situ cryo-electron tomography reveals the asymmetric architecture of mammalian sperm axonemes.
1. Nat Struct Mol Biol - published January 2, 2023
2. Chen Z, Greenan GA, Shiozaki M, Liu Y, Skinner WM, Zhao X, Zhao S, Yan R, Yu Z, Lishko PV, Agard DA, Vale RD
Dynamics of endogenous PARP1 and PARP2 during DNA damage revealed by live-cell single-molecule imaging.
1. iScience - published January 2, 2023
2. Mahadevan J, Jha A, Rudolph J, Bowerman S, Narducci D, Hansen AS, Luger K
Tumor hypoxia: From basic knowledge to therapeutic implications.
1. Semin Cancer Biol - published January 2, 2023
2. Liao C, Liu X, Zhang C, Zhang Q
A novel gyrovirus is abundant in yellow-eyed penguin (Megadyptes antipodes) chicks with a fatal respiratory disease.
1. Virology - published January 2, 2023
2. Wierenga JR, Morgan KJ, Hunter S, Taylor HS, Argilla LS, Webster T, Dubrulle J, Jorge F, Bostina M, Burga L, Holmes EC, McInnes K, Geoghegan JL
Surface Morphology and Subsurface Microstructure Evolution When Form Grinding 20Cr2Ni4A Alloys.
1. Materials (Basel) - published January 2, 2023
2. Zhang X, Jiang X, Li M, Gong P
Structure-function correlates of fibrinogen binding by Acinetobacter adhesins critical in catheter-associated urinary tract infections.
1. Proc Natl Acad Sci U S A - published January 2, 2023
2. Tamadonfar KO, Di Venanzio G, Pinkner JS, Dodson KW, Kalas V, Zimmerman MI, Bazan Villicana J, Bowman GR, Feldman MF, Hultgren SJ
Intracellular Experimental Evolution of Francisella tularensis Subsp. holarctica Live Vaccine Strain (LVS) to Antimicrobial Resistance.
1. ACS Infect Dis - published January 2, 2023
2. Mehta HH, Song X, Shamoo Y
A single, improbable B cell receptor mutation confers potent neutralization against cytomegalovirus.
1. PLoS Pathog - published January 2, 2023
2. Jenks JA, Amin S, Sponholtz MR, Kumar A, Wrapp D, Venkatayogi S, Tu JJ, Karthigeyan K, Valencia SM, Connors M, Harnois MJ, Hora B, Rochat E, McLellan JS, Wiehe K, Permar SR
Species-specific self-DNA detection mechanisms by mammalian cyclic GMP-AMP synthases.
1. Sci Immunol - published January 2, 2023
2. Mosallanejad K, Kennedy SN, Bahleda KM, Slavik KM, Zhou W, Govande AA, Hancks DC, Kranzusch PJ, Kagan JC
Polycomb deficiency drives a FOXP2-high aggressive state targetable by epigenetic inhibitors.
1. Nat Commun - published January 2, 2023
2. Chen F, Byrd AL, Liu J, Flight RM, DuCote TJ, Naughton KJ, Song X, Edgin AR, Lukyanchuk A, Dixon DT, Gosser CM, Esoe DP, Jayswal RD, Orkin SH, Moseley HNB, Wang C, Brainson CF
Sex-specific differences in immune response to SARS-CoV-2 vaccination vanish with age.
1. Allergy - published January 2, 2023
2. Brigger D, Guntern P, Jonsdottir HR, Pennington LF, Weber B, Taddeo A, Zimmer G, Leborgne NGF, Benarafa C, Jardetzky TS, Eggel A
Fast and automated protein-DNA/RNA macromolecular complex modeling from cryo-EM maps.
1. Brief Bioinform - published January 2, 2023
2. Nakamura A, Meng H, Zhao M, Wang F, Hou J, Cao R, Si D
Deciphering the RRM-RNA recognition code: A computational analysis.
1. PLoS Comput Biol - published January 2, 2023
2. Roca-Martínez J, Dhondge H, Sattler M, Vranken WF
Nanovaccines Displaying the Influenza Virus Hemagglutinin in an Inverted Orientation Elicit an Enhanced Stalk-Directed Antibody Response.
1. Adv Healthc Mater - published January 2, 2023
2. Frey SJ, Carreño JM, Bielak D, Arsiwala A, Altomare C, Varner C, Rosen-Cheriyan T, Bajic G, Krammer F, Kane RS
An allosteric switch ensures efficient unidirectional information transmission by the histidine kinase DesK from Bacillus subtilis.
1. Sci Signal - published January 2, 2023
2. Lima S, Blanco J, Olivieri F, Imelio JA, Nieves M, Carrión F, Alvarez B, Buschiazzo A, Marti MA, Trajtenberg F
3D RNA-scaffolded wireframe origami.
1. Nat Commun - published January 2, 2023
2. Parsons MF, Allan MF, Li S, Shepherd TR, Ratanalert S, Zhang K, Pullen KM, Chiu W, Rouskin S, Bathe M
Author Correction: Mechanism of NAIP-NLRC4 inflammasome activation revealed by cryo-EM structure of unliganded NAIP5.
1. Nat Struct Mol Biol - published January 2, 2023
2. Paidimuddala B, Cao J, Nash G, Xie Q, Wu H, Zhang L
Positive-strand RNA viruses-a Keystone Symposia report.
1. Ann N Y Acad Sci - published January 2, 2023
2. Cable J, Denison MR, Kielian M, Jackson WT, Bartenschlager R, Ahola T, Mukhopadhyay S, Fremont DH, Kuhn RJ, Shannon A, Frazier MN, Yuen KY, Coyne CB, Wolthers KC, Ming GL, Guenther CS, Moshiri J, Best SM, Schoggins JW, Jurado KA, Ebel GD, Schäfer A, Ng LFP, Kikkert M, Sette A, Harris E, Wing PAC, Eggenberger J, Krishnamurthy SR, Mah MG, Meganck RM, Chung D, Maurer-Stroh S, Andino R, Korber B, Perlman S, Shi PY, Bárcena M, Aicher SM, Vu MN, Kenney DJ, Lindenbach BD, Nishida Y, Rénia L, Williams EP
Mechanistic model of MAPK signaling reveals how allostery and rewiring contribute to drug resistance.
1. Mol Syst Biol - published January 2, 2023
2. Fröhlich F, Gerosa L, Muhlich J, Sorger PK
Catalytic removal of toluene using MnO(2)-based catalysts: A review.
1. Chemosphere - published January 2, 2023
2. Gong P, He F, Xie J, Fang D
Primer terminal ribonucleotide alters the active site dynamics of DNA Polymerase η and reduce DNA synthesis fidelity.
1. J Biol Chem - published January 2, 2023
2. Chang C, Lee Luo C, Eleraky S, Lin A, Zhou G, Gao Y
Large language models generate functional protein sequences across diverse families.
1. Nat Biotechnol - published January 2, 2023
2. Madani A, Krause B, Greene ER, Subramanian S, Mohr BP, Holton JM, Olmos JL Jr, Xiong C, Sun ZZ, Socher R, Fraser JS, Naik N
Human neutralizing antibodies to cold linear epitopes and subdomain 1 of the SARS-CoV-2 spike glycoprotein.
1. Sci Immunol - published January 2, 2023
2. Bianchini F, Crivelli V, Abernathy ME, Guerra C, Palus M, Muri J, Marcotte H, Piralla A, Pedotti M, De Gasparo R, Simonelli L, Matkovic M, Toscano C, Biggiogero M, Calvaruso V, Svoboda P, Cervantes Rincón T, Fava T, Podešvová L, Shanbhag AA, Celoria A, Sgrignani J, Stefanik M, Hönig V, Pranclova V, Michalcikova T, Prochazka J, Guerrini G, Mehn D, Ciabattini A, Abolhassani H, Jarrossay D, Uguccioni M, Medaglini D, Pan-Hammarström Q, Calzolai L, Fernandez D, Baldanti F, Franzetti-Pellanda A, Garzoni C, Sedlacek R, Ruzek D, Varani L, Cavalli A, Barnes CO, Robbiani DF
Polβ/XRCC1 heterodimerization dictates DNA damage recognition and basal Polβ protein levels without interfering with mouse viability or fertility.
1. DNA Repair (Amst) - published January 2, 2023
2. Koczor CA, Thompson MK, Sharma N, Prakash A, Sobol RW
Dissociative Transition State in Hepatitis Delta Virus Ribozyme Catalysis.
1. J Am Chem Soc - published January 2, 2023
2. Weissman B, Ekesan Ş, Lin HC, Gardezi S, Li NS, Giese TJ, McCarthy E, Harris ME, York DM, Piccirilli JA
Efficacy and safety of metabolic interventions for the treatment of severe COVID-19: in vitro, observational, and non-randomized open-label interventional study.
1. Elife - published January 2, 2023
2. Ehrlich A, Ioannidis K, Nasar M, Abu Alkian I, Daskal Y, Atari N, Kliker L, Rainy N, Hofree M, Shafran Tikva S, Houri I, Cicero A, Pavanello C, Sirtori CR, Cohen JB, Chirinos JA, Deutsch L, Cohen M, Gottlieb A, Bar-Chaim A, Shibolet O, Mandelboim M, Maayan SL, Nahmias Y
Functional HIV-1/HCV cross-reactive antibodies isolated from a chronically co-infected donor.
1. Cell Rep - published January 2, 2023
2. Pilewski KA, Wall S, Richardson SI, Manamela NP, Clark K, Hermanus T, Binshtein E, Venkat R, Sautto GA, Kramer KJ, Shiakolas AR, Setliff I, Salas J, Mapengo RE, Suryadevara N, Brannon JR, Beebout CJ, Parks R, Raju N, Frumento N, Walker LM, Fechter EF, Qin JS, Murji AA, Janowska K, Thakur B, Lindenberger J, May AJ, Huang X, Sammour S, Acharya P, Carnahan RH, Ross TM, Haynes BF, Hadjifrangiskou M, Crowe JE Jr, Bailey JR, Kalams S, Morris L, Georgiev IS
Iron-sulfur clusters are involved in post-translational arginylation.
1. Nat Commun - published January 2, 2023
2. Van V, Brown JB, O'Shea CR, Rosenbach H, Mohamed I, Ejimogu NE, Bui TS, Szalai VA, Chacón KN, Span I, Zhang F, Smith AT
Understanding Physical Distancing and Face Mask Use Across High-Risk African American Subgroups During the COVID-19 Pandemic: Application of Health Belief Model.
1. Health Promot Pract - published January 2, 2023
2. Moss J, Alexander L, Barré I, Parham I, Gillyard T, Davis J, Cunningham-Erves J
Expanding and Improving Nanobody Repertoires Using a Yeast Display Method: Targeting SARS-CoV-2.
1. J Biol Chem - published January 2, 2023
2. Cross FR, Fridy P, Ketaren N, Mast F, Li S, Olivier P, Pecani K, Chait BT, Aitchison JD, Rout MP
Microstructure, grain and nanowire growth during selective laser melting of Ag-Cu/diamond composites.
1. RSC Adv - published January 2, 2023
2. Xin C, Zhao X, Geng H, Hao L, Li Y, Chen T, Gong P
Improved Bst DNA Polymerase Variants Derived via a Machine Learning Approach.
1. Biochemistry - published January 1, 2023
2. Paik I, Ngo PHT, Shroff R, Diaz DJ, Maranhao AC, Walker DJF, Bhadra S, Ellington AD
Discovery of novel N-acylpyrazoles as potent and selective thrombin inhibitors.
1. Eur J Med Chem - published January 1, 2023
2. Short KM, Estiarte MA, Pham SM, Williams DC, Igoudin L, Dash S, Sandoval N, Datta A, Pozzi N, Di Cera E, Kita DB
Multi-center evaluation of baseline neutrophil-to-lymphocyte (NLR) ratio as an independent predictor of mortality and clinical risk stratifier in idiopathic pulmonary fibrosis.
1. EClinicalMedicine - published January 1, 2023
2. Mikolasch TA, George PM, Sahota J, Nancarrow T, Barratt SL, Woodhead FA, Kouranos V, Cope VSA, Creamer AW, Fidan S, Ganeshan B, Hoy L, Mackintosh JA, Shortman R, Duckworth A, Fallon J, Garthwaite H, Heightman M, Adamali HI, Lines S, Win T, Wollerton R, Renzoni EA, Steward M, Wells AU, Gibbons M, Groves AM, Gooptu B, Scotton CJ, Porter JC
Hearing Preservation and Spatial Hearing Outcomes After Cochlear Implantation in Children With TMPRSS3 Mutations.
1. Otol Neurotol - published January 1, 2023
2. Peng ZE, Garcia A, Godar SP, Holt JR, Lee DJ, Litovsky RY
Protein biosynthesis at the ER: finding the right accessories.
1. Mol Biol Cell - published January 1, 2023
2. Shao S
Leveraging Baird aromaticity for advancement of bioimaging applications.
1. J Phys Org Chem - published January 1, 2023
2. Martin MI, Pati AK, Abeywickrama CS, Bar S, Kilic Z, Altman RB, Blanchard SC
Iterative computational design and crystallographic screening identifies potent inhibitors targeting the Nsp3 macrodomain of SARS-CoV-2.
1. Proc Natl Acad Sci U S A - published January 1, 2023
2. Gahbauer S, Correy GJ, Schuller M, Ferla MP, Doruk YU, Rachman M, Wu T, Diolaiti M, Wang S, Neitz RJ, Fearon D, Radchenko DS, Moroz YS, Irwin JJ, Renslo AR, Taylor JC, Gestwicki JE, von Delft F, Ashworth A, Ahel I, Shoichet BK, Fraser JS
Molecular-dynamics simulation methods for macromolecular crystallography.
1. Acta Crystallogr D Struct Biol - published January 1, 2023
2. Wych DC, Aoto PC, Vu L, Wolff AM, Mobley DL, Fraser JS, Taylor SS, Wall ME
Rosetta's Predictive Ability for Low-Affinity Ligand Binding in Fragment-Based Drug Discovery.
1. Biochemistry - published January 1, 2023
2. Okwei E, Smith ST, Bender BJ, Allison B, Ganguly S, Geanes A, Zhang X, Ledwitch K, Meiler J
Evolution of nanobodies specific for BCL11A.
1. Proc Natl Acad Sci U S A - published January 1, 2023
2. Yin M, Izadi M, Tenglin K, Viennet T, Zhai L, Zheng G, Arthanari H, Dassama LMK, Orkin SH
Estimating conformational landscapes from Cryo-EM particles by 3D Zernike polynomials.
1. Nat Commun - published January 1, 2023
2. Herreros D, Lederman RR, Krieger JM, Jiménez-Moreno A, Martínez M, Myška D, Strelak D, Filipovic J, Sorzano COS, Carazo JM
Author Correction: Mechanism of human Lig1 regulation by PCNA in Okazaki fragment sealing.
1. Nat Commun - published January 1, 2023
2. Blair K, Tehseen M, Raducanu VS, Shahid T, Lancey C, Rashid F, Crehuet R, Hamdan SM, De Biasio A
Catheterization of mice triggers resurgent urinary tract infection seeded by a bladder reservoir of Acinetobacter baumannii.
1. Sci Transl Med - published January 1, 2023
2. Hazen JE, Di Venanzio G, Hultgren SJ, Feldman MF
Spike and nsp6 are key determinants of SARS-CoV-2 Omicron BA.1 attenuation.
1. Nature - published January 1, 2023
2. Chen DY, Chin CV, Kenney D, Tavares AH, Khan N, Conway HL, Liu G, Choudhary MC, Gertje HP, O'Connell AK, Adams S, Kotton DN, Herrmann A, Ensser A, Connor JH, Bosmann M, Li JZ, Gack MU, Baker SC, Kirchdoerfer RN, Kataria Y, Crossland NA, Douam F, Saeed M
Improved Analysis of Cross-Linking Mass Spectrometry Data with Kojak 2.0, Advanced by Integration into the Trans-Proteomic Pipeline.
1. J Proteome Res - published January 1, 2023
2. Hoopmann MR, Shteynberg DD, Zelter A, Riffle M, Lyon AS, Agard DA, Luan Q, Nolen BJ, MacCoss MJ, Davis TN, Moritz RL
Structural basis for intrinsic transcription termination.
1. Nature - published January 1, 2023
2. You L, Omollo EO, Yu C, Mooney RA, Shi J, Shen L, Wu X, Wen A, He D, Zeng Y, Feng Y, Landick R, Zhang Y
Demethylation of dimethyl phosphonate esters with sodium ethanethiolate: Improved synthesis of 5'-methylene substituted 2',5'-deoxyribonucleotides.
1. Nucleosides Nucleotides Nucleic Acids - published January 1, 2023
2. Li NS, Piccirilli JA, Greene GL
A Germline-Targeting Chimpanzee SIV Envelope Glycoprotein Elicits a New Class of V2-Apex Directed Cross-Neutralizing Antibodies.
1. mBio - published January 1, 2023
2. Bibollet-Ruche F, Russell RM, Ding W, Liu W, Li Y, Wagh K, Wrapp D, Habib R, Skelly AN, Roark RS, Sherrill-Mix S, Wang S, Rando J, Lindemuth E, Cruickshank K, Park Y, Baum R, Carey JW, Connell AJ, Li H, Giorgi EE, Song GS, Ding S, Finzi A, Newman A, Hernandez GE, Machiele E, Cain DW, Mansouri K, Lewis MG, Montefiori DC, Wiehe KJ, Alam SM, Teng IT, Kwong PD, Andrabi R, Verkoczy L, Burton DR, Korber BT, Saunders KO, Haynes BF, Edwards RJ, Shaw GM, Hahn BH
The SPOC domain is a phosphoserine binding module that bridges transcription machinery with co- and post-transcriptional regulators.
1. Nat Commun - published January 1, 2023
2. Appel LM, Franke V, Benedum J, Grishkovskaya I, Strobl X, Polyansky A, Ammann G, Platzer S, Neudolt A, Wunder A, Walch L, Kaiser S, Zagrovic B, Djinovic-Carugo K, Akalin A, Slade D
Targeting TBK1 to overcome resistance to cancer immunotherapy.
1. Nature - published January 1, 2023
2. Sun Y, Revach OY, Anderson S, Kessler EA, Wolfe CH, Jenney A, Mills CE, Robitschek EJ, Davis TGR, Kim S, Fu A, Ma X, Gwee J, Tiwari P, Du PP, Sindurakar P, Tian J, Mehta A, Schneider AM, Yizhak K, Sade-Feldman M, LaSalle T, Sharova T, Xie H, Liu S, Michaud WA, Saad-Beretta R, Yates KB, Iracheta-Vellve A, Spetz JKE, Qin X, Sarosiek KA, Zhang G, Kim JW, Su MY, Cicerchia AM, Rasmussen MQ, Klempner SJ, Juric D, Pai SI, Miller DM, Giobbie-Hurder A, Chen JH, Pelka K, Frederick DT, Stinson S, Ivanova E, Aref AR, Paweletz CP, Barbie DA, Sen DR, Fisher DE, Corcoran RB, Hacohen N, Sorger PK, Flaherty KT, Boland GM, Manguso RT, Jenkins RW
The mechanism of genome replication and transcription in bunyaviruses.
1. PLoS Pathog - published January 1, 2023
2. Malet H, Williams HM, Cusack S, Rosenthal M
Structure-Based Stabilization of SOSIP Env Enhances Recombinant Ectodomain Durability and Yield.
1. J Virol - published January 1, 2023
2. Wrapp D, Mu Z, Thakur B, Janowska K, Ajayi O, Barr M, Parks R, Mansouri K, Edwards RJ, Hahn BH, Acharya P, Saunders KO, Haynes BF
Bifidobacterium bifidum Ameliorates DSS-Induced Colitis in Mice by Regulating AHR/NRF2/NLRP3 Inflammasome Pathways through Indole-3-lactic Acid Production.
1. J Agric Food Chem - published January 1, 2023
2. Cui Q, Zhang Z, Tian X, Liang X, Lu Y, Shi Y, Kuerman M, Wang R, Yu Zhou, Gong P, Lin K, Yi H, Li J, Liu T, Zhang L
An NmrA-like enzyme-catalysed redox-mediated Diels-Alder cycloaddition with anti-selectivity.
1. Nat Chem - published January 1, 2023
2. Liu Z, Rivera S, Newmister SA, Sanders JN, Nie Q, Liu S, Zhao F, Ferrara JD, Shih HW, Patil S, Xu W, Miller MD, Phillips GN, Houk KN, Sherman DH, Gao X
Oncolytic strategy using new bifunctional HDACs/BRD4 inhibitors against virus-associated lymphomas.
1. PLoS Pathog - published January 1, 2023
2. Chen J, Wang Z, Phuc T, Xu Z, Yang D, Chen Z, Lin Z, Kendrick S, Dai L, Li HY, Qin Z
Carrier protein mediated cargo sensing in quorum signal synthases.
1. Chem Commun (Camb) - published January 1, 2023
2. Fischer PD, Chowdhury AS, Bartholow T, Basu S, Baggs E, Cox HS 3rd, Matošin S, Burkart MD, Warner L, Nagarajan R, Arthanari H
From seeds to trees: how E2 enzymes grow ubiquitin chains.
1. Biochem Soc Trans - published January 1, 2023
2. Middleton AJ, Day CL
Enolpyruvate Transferase MurAA(A149E), Identified During Adaptation of Enterococcus faecium to Daptomycin, Increases Stability of MurAA-MurG Interaction.
1. J Biol Chem - published January 1, 2023
2. Zhou Y, Utama B, Pratap S, Supandy A, Song X, Tran TT, Mehta HH, Arias CA, Shamoo Y
Mechanism of Ca(2+) transport by ferroportin.
1. Elife - published January 1, 2023
2. Shen J, Wilbon AS, Zhou M, Pan Y
Structural basis of ferroportin inhibition by minihepcidin PR73.
1. PLoS Biol - published January 1, 2023
2. Wilbon AS, Shen J, Ruchala P, Zhou M, Pan Y
Integration of fingerprint-based similarity searching and kernel-based partial least squares analysis to predict inhibitory activity against CSK, HER2, JAK1, JAK2, and JAK3.
1. Mol Divers - published January 1, 2023
2. Deokar H, Deokar M, Buolamwini JK
Structural insights into viral genome replication by the severe fever with thrombocytopenia syndrome virus L protein.
1. Nucleic Acids Res - published January 1, 2023
2. Williams HM, Thorkelsson SR, Vogel D, Milewski M, Busch C, Cusack S, Grünewald K, Quemin ERJ, Rosenthal M
Depletion of the RNA-binding protein PURA triggers changes in posttranscriptional gene regulation and loss of P-bodies.
1. Nucleic Acids Res - published January 1, 2023
2. Molitor L, Klostermann M, Bacher S, Merl-Pham J, Spranger N, Burczyk S, Ketteler C, Rusha E, Tews D, Pertek A, Proske M, Busch A, Reschke S, Feederle R, Hauck SM, Blum H, Drukker M, Fischer-Posovszky P, König J, Zarnack K, Niessing D
A molecular network of conserved factors keeps ribosomes dormant in the egg.
1. Nature - published January 1, 2023
2. Leesch F, Lorenzo-Orts L, Pribitzer C, Grishkovskaya I, Roehsner J, Chugunova A, Matzinger M, Roitinger E, Belačić K, Kandolf S, Lin TY, Mechtler K, Meinhart A, Haselbach D, Pauli A
Real-world COVID-19 vaccine effectiveness against the Omicron BA.2 variant in a SARS-CoV-2 infection-naive population.
1. Nat Med - published January 1, 2023
2. Lau JJ, Cheng SMS, Leung K, Lee CK, Hachim A, Tsang LCH, Yam KWH, Chaothai S, Kwan KKH, Chai ZYH, Lo THK, Mori M, Wu C, Valkenburg SA, Amarasinghe GK, Lau EHY, Hui DSC, Leung GM, Peiris M, Wu JT
Author Correction: Structural and molecular determinants for the interaction of ExbB from Serratia marcescens and HasB, a TonB paralog.
1. Commun Biol - published January 1, 2023
2. Biou V, Adaixo RJD, Chami M, Coureux PD, Laurent B, Enguéné VYN, de Amorim GC, Izadi-Pruneyre N, Malosse C, Chamot-Rooke J, Stahlberg H, Delepelaire P
Epistasis lowers the genetic barrier to SARS-CoV-2 neutralizing antibody escape.
1. Nat Commun - published January 1, 2023
2. Witte L, Baharani VA, Schmidt F, Wang Z, Cho A, Raspe R, Guzman-Cardozo C, Muecksch F, Canis M, Park DJ, Gaebler C, Caskey M, Nussenzweig MC, Hatziioannou T, Bieniasz PD
ETV6 dependency in Ewing sarcoma by antagonism of EWS-FLI1-mediated enhancer activation.
1. Nat Cell Biol - published January 1, 2023
2. Gao Y, He XY, Wu XS, Huang YH, Toneyan S, Ha T, Ipsaro JJ, Koo PK, Joshua-Tor L, Bailey KM, Egeblad M, Vakoc CR
Structural basis for a conserved neutralization epitope on the receptor-binding domain of SARS-CoV-2.
1. Nat Commun - published January 1, 2023
2. Huang KA, Chen X, Mohapatra A, Nguyen HTV, Schimanski L, Tan TK, Rijal P, Vester SK, Hills RA, Howarth M, Keeffe JR, Cohen AA, Kakutani LM, Wu YM, Shahed-Al-Mahmud M, Chou YC, Bjorkman PJ, Townsend AR, Ma C
A call to order: Examining structured domains in biomolecular condensates.
1. J Magn Reson - published January 1, 2023
2. Tibble RW, Gross JD
Discovery and Mechanistic Analysis of Structurally Diverse Inhibitors of Acetyltransferase Eis among FDA-Approved Drugs.
1. Biochemistry - published January 1, 2023
2. Pang AH, Green KD, Punetha A, Thamban Chandrika N, Howard KC, Garneau-Tsodikova S, Tsodikov OV
Multiplexed 3D atlas of state transitions and immune interaction in colorectal cancer.
1. Cell - published January 1, 2023
2. Lin JR, Wang S, Coy S, Chen YA, Yapp C, Tyler M, Nariya MK, Heiser CN, Lau KS, Santagata S, Sorger PK
Identification of Autophagy as a Functional Target Suitable for the Pharmacological Treatment of Mitochondrial Membrane Protein-Associated Neurodegeneration (MPAN) In Vitro.
1. Pharmaceutics - published January 1, 2023
2. Zanuttigh E, Derderian K, Güra MA, Geerlof A, Di Meo I, Cavestro C, Hempfling S, Ortiz-Collazos S, Mauthe M, Kmieć T, Cammarota E, Panzeri MC, Klopstock T, Sattler M, Winkelmann J, Messias AC, Iuso A
Genetic and Molecular Interactions between H(ΔCT), a Novel Allele of the Notch Antagonist Hairless, and the Histone Chaperone Asf1 in Drosophila melanogaster.
1. Genes (Basel) - published January 1, 2023
2. Maier D, Bauer M, Boger M, Sanchez Jimenez A, Yuan Z, Fechner J, Scharpf J, Kovall RA, Preiss A, Nagel AC
Multi-level force-dependent allosteric enhancement of αE-catenin binding to F-actin by vinculin.
1. J Mol Biol - published January 1, 2023
2. Bax NA, Wang A, Huang DL, Pokutta S, Weis WI, Dunn AR
A novel humanized Chi3l1 blocking antibody attenuates acetaminophen-induced liver injury in mice.
1. Antib Ther - published January 1, 2023
2. Li L, Wen Y, Wrapp D, Jeong J, Zhao P, Xiong W, Atkins CL, Shan Z, Hui D, McLellan JS, Zhang N, Ju C, An Z