Member Publications

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148 Member Publications for November 2023

Toward the understanding of DSG2 and CD46 interaction with HAdV-11 fiber, a super-complex analysis.
1. J Virol - published November 30, 2023
2. Effantin G, Hograindleur M-A, Fenel D, Fender P, Vassal-Stermann E
Evolutionary flexibility and rigidity in the bacterial methylerythritol phosphate (MEP) pathway.
1. Front Microbiol - published November 29, 2023
2. Marshall B, Amritkar K, Wolfe M, Kaçar B, Landick R
Artificial Intelligence Improves Patient Follow-Up in a Diabetic Retinopathy Screening Program.
1. Clin Ophthalmol - published November 29, 2023
2. Dow ER, Chen KM, Zhao CS, Knapp AN, Phadke A, Weng K, Do DV, Mahajan VB, Mruthyunjaya P, Leng T, Myung D
Simultaneous Bilateral Open-Globe Repair and Vitreoretinal Surgery for Explosive-Related Ocular Injury.
1. J Vitreoretin Dis - published November 17, 2023
2. Mishra K, Roybal CN, Mahajan VB
Editorial: HTLV-1: addressing unmet research needs, volume II.
1. Front Microbiol - published November 15, 2023
2. Cunha MS, Zhang W, Mansky LM, Mendonça LM
UniProtExtractR: an app and R package for easily extracting protein-specific UniProtKB information and fine-tuning organelle resolution.
1. Bioinform Adv - published November 13, 2023
2. Panov A, Harper JW
Cryo-EM reveals how Hsp90 and FKBP immunophilins co-regulate the glucocorticoid receptor.
1. Nat Struct Mol Biol - published November 9, 2023
2. Noddings CM, Johnson JL, Agard DA
A helical fulcrum in eIF2B coordinates allosteric regulation of stress signaling.
1. Nat Chem Biol - published November 9, 2023
2. Lawrence RE, Shoemaker SR, Deal A, Sangwan S, Anand AA, Wang L, Marqusee S, Walter P
MicroED as a Powerful Tool for Structure Determination of Macrocyclic Drug Compounds Directly from Their Powder Formulations.
1. ACS Chem Biol - published November 9, 2023
2. Danelius E, Bu G, Wieske LHE, Gonen T
Engineered Antigen-Binding Fragments for Enhanced Crystallization of Antibody:Antigen Complexes.
1. Protein Sci - published November 9, 2023
2. Bruce HA, Singer AU, Filippova EV, Blazer LL, Adams JJ, Enderle L, Ben-David M, Radley EH, Mao DYL, Pau V, Orlicky S, Sicheri F, Kourinov I, Atwell S, Kossiakoff AA, Sidhu SS
Covalent Stapling of the Cereblon Sensor Loop Histidine Using Sulfur-Heterocycle Exchange.
1. ACS Med Chem Lett - published November 9, 2023
2. Cruite JT, Nowak RP, Donovan KA, Ficarro SB, Huang H, Liu H, Liu Y, Marto JA, Metivier RJ, Fischer ES, Jones LH
Single-molecule dynamics show a transient lipopolysaccharide transport bridge.
1. Nature - published November 8, 2023
2. Törk L, Moffatt CB, Bernhardt TG, Garner EC, Kahne D
Cost-Effectiveness of CT, CTA, MRI, and Specialized MRI for Evaluation of Patients Presenting to the Emergency Department With Dizziness.
1. AJR Am J Roentgenol - published November 8, 2023
2. Tu LH, Melnick E, Venkatesh AK, Sheth KN, Navaratnam D, Yaesoubi R, Forman HP, Mahajan A
Hepatitis C virus infects and perturbs liver stem cells.
1. mBio - published November 8, 2023
2. Meyers NL, Ashuach T, Lyons DE, Khalid MM, Simoneau CR, Erickson AL, Bouhaddou M, Nguyen TT, Kumar GR, Taha TY, Natarajan V, Baron JL, Neff N, Zanini F, Mahmoudi T, Quake SR, Krogan NJ, Cooper S, McDevitt TC, Yosef N, Ott M
Asymmetric conformations and lipid interactions shape the ATP-coupled cycle of a heterodimeric ABC transporter.
1. Nat Commun - published November 8, 2023
2. Tang Q, Sinclair M, Hasdemir HS, Stein RA, Karakas E, Tajkhorshid E, Mchaourab HS
Tuning sterol extraction kinetics yields a renal-sparing polyene antifungal.
1. Nature - published November 8, 2023
2. Maji A, Soutar CP, Zhang J, Lewandowska A, Uno BE, Yan S, Shelke Y, Murhade G, Nimerovsky E, Borcik CG, Arango AS, Lange JD, Marin-Toledo JP, Lyu Y, Bailey KL, Roady PJ, Holler JT, Khandelwal A, SantaMaria AM, Sanchez H, Juvvadi PR, Johns G, Hageman MJ, Krise J, Gebremariam T, Youssef EG, Bartizal K, Marr KA, Steinbach WJ, Ibrahim AS, Patterson TF, Wiederhold NP, Andes DR, Pogorelov TV, Schwieters CD, Fan TM, Rienstra CM, Burke MD
Characterization of erythroferrone oligomerization and its impact on BMP antagonism.
1. J Biol Chem - published November 8, 2023
2. Mast JF, Leach EA, Thompson TB
tRNA m(1)G9 modification depends on substrate-specific RNA conformational changes induced by the methyltransferase Trm10.
1. J Biol Chem - published November 8, 2023
2. Strassler SE, Bowles IE, Krishnamohan A, Kim H, Edgington CB, Kuiper EG, Hancock CJ, Comstock LR, Jackman JE, Conn GL
Structure of Phosphorylated-like RssB, the Adaptor Delivering σ(s) to the ClpXP Proteolytic Machinery, Reveals an Interface Switch for Activation.
1. J Biol Chem - published November 8, 2023
2. Brugger C, Schwartz J, Novick S, Tong S, Hoskins J, Majdalani N, Kim R, Filipovski M, Wickner S, Gottesman S, Griffin P, Deaconescu AM
Molecular basis for Nse5-6 mediated regulation of Smc5/6 functions.
1. Proc Natl Acad Sci U S A - published November 7, 2023
2. Li S, Yu Y, Zheng J, Miller-Browne V, Ser Z, Kuang H, Patel DJ, Zhao X
Structural insights into the modulation of coronavirus spike tilting and infectivity by hinge glycans.
1. Nat Commun - published November 7, 2023
2. Chmielewski D, Wilson EA, Pintilie G, Zhao P, Chen M, Schmid MF, Simmons G, Wells L, Jin J, Singharoy A, Chiu W
RNA recognition by Npl3p reveals U2 snRNA-binding compatible with a chaperone role during splicing.
1. Nat Commun - published November 7, 2023
2. Moursy A, Cléry A, Gerhardy S, Betz KM, Rao S, Mazur J, Campagne S, Beusch I, Duszczyk MM, Robinson MD, Panse VG, Allain FH
Protocol for isolating mice skeletal muscle myoblasts and myotubes via differential antibody validation.
1. STAR Protoc - published November 7, 2023
2. Stephens DC, Mungai M, Crabtree A, Beasley HK, Garza-Lopez E, Vang L, Neikirk K, Vue Z, Vue N, Marshall AG, Turner K, Shao JQ, Sarker B, Murray S, Gaddy JA, Davis J, Damo SM, Hinton AO Jr
Allosteric Neutralization by Human H7N9 Antibodies.
1. Res Sq - published November 7, 2023
2. Jia M, Zhao H, Morano NC, Lu H, Lui YM, Du H, Becker JE, Yuen KY, Ho DD, Kwong PD, Shapiro L, To KK, Wu X
Structural insights into the diverse prenylating capabilities of DMATS prenyltransferases.
1. Nat Prod Rep - published November 6, 2023
2. Miller ET, Tsodikov OV, Garneau-Tsodikova S
Fanzors: Striking expansion of RNA-guided endonucleases to eukaryotes.
1. Cell Res - published November 6, 2023
2. Yang H, Patel DJ
Addressing concerns and uncertainties surrounding the application of palliative radiotherapy in cases with a 30-day expected mortality.
1. Ann Palliat Med - published November 6, 2023
2. Navarro-Domenech I, Behroozian T, Hoskin P, Johnstone C, Recht A, Menten J, Oldenburger E, van der Linden YM, van der Velden JM, Nguyen QN, Simone CB 2nd, Johnstone P, Lutz S, Milton L, Andratschke N, Willmann J, Kazmierska J, Spałek M, Marta GN, Chow E, Raman S
Male-male interactions shape mate selection in Drosophila.
1. bioRxiv - published November 5, 2023
2. Sten TH, Li R, Hollunder F, Eleazer S, Ruta V
A flow cytometry-based assay to investigate HIV-1 expression in SMYD5 shRNA containing primary CD4(+) T cells.
1. STAR Protoc - published November 4, 2023
2. Boehm D, Ott M
A novel exopolysaccharide pathway from a freshwater Sphingomonas isolate.
1. bioRxiv - published November 4, 2023
2. Goetsch AG, Ufearo D, Keiser G, Heiss C, Azadi P, Hershey DM
(13)C and (15)N resonance assignments of alpha synuclein fibrils amplified from Lewy Body Dementia tissue.
1. Biomol NMR Assign - published November 3, 2023
2. Barclay AM, Dhavale DD, Borcik CG, Milchberg MH, Kotzbauer PT, Rienstra CM
Structure of a membrane-bound menaquinol:organohalide oxidoreductase.
1. Nat Commun - published November 3, 2023
2. Cimmino L, Duarte AG, Ni D, Ekundayo BE, Pereira IAC, Stahlberg H, Holliger C, Maillard J
Aerosol delivery of SARS-CoV-2 human monoclonal antibodies in macaques limits viral replication and lung pathology.
1. Nat Commun - published November 3, 2023
2. Streblow DN, Hirsch AJ, Stanton JJ, Lewis AD, Colgin L, Hessell AJ, Kreklywich CN, Smith JL, Sutton WF, Chauvin D, Woo J, Bimber BN, LeBlanc CN, Acharya SN, O'Roak BJ, Sardar H, Sajadi MM, Tehrani ZR, Walter MR, Martinez-Sobrido L, Kobie JJ, Reader RJ, Olstad KJ, Hobbs TR, Saphire EO, Schendel SL, Carnahan RH, Knoch J, Branco LM, Crowe JE Jr, Van Rompay KKA, Lovalenti P, Vu Truong, Forthal DN, Haigwood NL
Substrate selectivity and catalytic activation of the type III CRISPR ancillary nuclease Can2.
1. Nucleic Acids Res - published November 3, 2023
2. Jungfer K, Sigg A, Jinek M
Mass Spectrometric Detection of Formaldehyde-Crosslinked PBMC Proteins in Cell-Free DNA Blood Collection Tubes.
1. Molecules - published November 3, 2023
2. Röth D, Molina-Franky J, Williams JC, Kalkum M
Differences in clamp loader mechanism between bacteria and eukaryotes.
1. bioRxiv - published November 3, 2023
2. Landeck JT, Pajak J, Norman EK, Sedivy EL, Kelch BA
CryoEM structures of the human CLC-2 voltage gated chloride channel reveal a ball and chain gating mechanism.
1. bioRxiv - published November 2, 2023
2. Xu M, Neelands T, Powers AS, Liu Y, Miller SD, Pintilie G, Bois JD, Dror RO, Chiu W, Maduke M
Deep Mutational Scanning in Disease-related Genes with Saturation Mutagenesis-Reinforced Functional Assays (SMuRF).
1. bioRxiv - published November 2, 2023
2. Ma K, Ng KK, Huang S, Lake NJ, Xu J, Lek A, Ge L, Woodman KG, Koczwara KE, Ho V, O'Connor CL, Joseph S, Brindley MA, Campbell KP, Lek M
Discovery and clinical proof-of-concept of RLY-2608, a first-in-class mutant-selective allosteric PI3Ka inhibitor that decouples anti-tumor activity from hyperinsulinemia.
1. Cancer Discov - published November 2, 2023
2. Varkaris A, Pazolli E, Gunaydin H, Wang Q, Pierce L, Boezio AA, DiPietro L, Frost A, Giordanetto F, Hamilton EP, Harris K, Holliday M, Hunter TL, Iskandar A, Ji Y, Larivée A, LaRochelle JR, Lescarbeau A, Llambi F, Lormil B, Mader MM, Mar BG, Martin I, McLean TH, Michelsen K, Pechersky Y, Puente-Poushnejad E, Samadani R, Schram AM, Shortsleeves K, Swaminathan S, Tajmir S, Tan G, Tang Y, Valverde R, Wehrenberg B, Wilbur J, Williams BR, Zeng H, Walters WP, Wolf BB, Shaw DE, Bergstrom DA, Watters J, Fraser JS, Fortin PD, Kipp DR
The Energetic Origins of Pi-Pi Contacts in Proteins.
1. J Am Chem Soc - published November 2, 2023
2. Carter-Fenk K, Liu M, Pujal L, Loipersberger M, Tsanai M, Vernon RM, Forman-Kay JD, Head-Gordon M, Heidar-Zadeh F, Head-Gordon T
Towards engineering mitigation of leaching of Cd and Pb in co-contaminated soils using metal oxide-based aerogel composites and biochar.
1. Environ Sci Process Impacts - published November 2, 2023
2. Sanaei D, Sarmadi M, Dehghani MH, Sharifan H, Ribeiro PG, Guilherme LRG, Rahimi S
Autoregulatory control of mitochondrial glutathione homeostasis.
1. Science - published November 2, 2023
2. Liu Y, Liu S, Tomar A, Yen FS, Unlu G, Ropek N, Weber RA, Wang Y, Khan A, Gad M, Peng J, Terzi E, Alwaseem H, Pagano AE, Heissel S, Molina H, Allwein B, Kenny TC, Possemato RL, Zhao L, Hite RK, Vinogradova EV, Mansy SS, Birsoy K
Live-cell target engagement of allosteric MEKi on MEK-RAF/KSR-14-3-3 complexes.
1. Nat Chem Biol - published November 2, 2023
2. Marsiglia WM, Chow A, Khan ZM, He L, Dar AC
Author Correction: Evolution of structural rearrangements in prostate cancer intracranial metastases.
1. NPJ Precis Oncol - published November 2, 2023
2. Khani F, Hooper WF, Wang X, Chu TR, Shah M, Winterkorn L, Sigouros M, Conteduca V, Pisapia D, Wobker S, Walker S, Graff JN, Robinson B, Mosquera JM, Sboner A, Elemento O, Robine N, Beltran H
SARS-CoV-2 viral persistence in lung alveolar macrophages is controlled by IFN-γ and NK cells.
1. Nat Immunol - published November 2, 2023
2. Huot N, Planchais C, Rosenbaum P, Contreras V, Jacquelin B, Petitdemange C, Lazzerini M, Beaumont E, Orta-Resendiz A, Rey FA, Reeves RK, Le Grand R, Mouquet H, Müller-Trutwin M
A domain of all trades: The enzymatic versatility of the NiRAN domain.
1. Mol Cell - published November 2, 2023
2. Osinski A, Tagliabracci VS
Diversity, Equity and Inclusion in the Laboratory: Strategies to Enhance Inclusive Laboratory Culture.
1. Mol Cell - published November 2, 2023
2. Marshall AG, Vue Z, Beasley HK, Neikirk K, Stephens D, Wanjalla CN, Damo SM, Trejo J, Rodriguez-Aliaga P, Headley CA, Shuler H, Liu K, Smith N, Garza-Lopez E, Barongan T, Scudese E, Spencer E, Heemstra J, Vazquez AD, Murray SA, Hinton A Jr
Fitting high-resolution electron density maps from atomic models to solution scattering data.
1. Biophys J - published November 2, 2023
2. Chamberlain SR, Moore S, Grant TD
Solution structure of poly(UG) RNA.
1. J Mol Biol - published November 2, 2023
2. Escobar CA, Petersen RJ, Tonelli M, Fan L, Henzler-Wildman K, Butcher SE
Mechanism of stepwise electron transfer in six-transmembrane epithelial antigen of the prostate (STEAP) 1 and 2.
1. Elife - published November 2, 2023
2. Chen K, Wang L, Shen J, Tsai AL, Zhou M, Wu G
Recognition of centromere-specific histone Cse4 by the inner kinetochore Okp1-Ame1 complex.
1. EMBO Rep - published November 2, 2023
2. Deng S, Cai J, Harrison SC, Zhou H, Hinshaw SM
Mechanistic basis of ligand efficacy in the calcium-activated chloride channel TMEM16A.
1. EMBO J - published November 2, 2023
2. Lam AK, Dutzler R
Diversity, evolution, and classification of the RNA-guided nucleases TnpB and Cas12.
1. Proc Natl Acad Sci U S A - published November 2, 2023
2. Altae-Tran H, Shmakov SA, Makarova KS, Wolf YI, Kannan S, Zhang F, Koonin EV
Base-Displaced Intercalated Structure of the 3-(2-Deoxy-β-D-erythropentofuranosyl)-pyrimido[1,2-f]purine-6,10(3H,5H)-dione (6-oxo-M(1)dG) Lesion in DNA.
1. Chem Res Toxicol - published November 2, 2023
2. Fu Y, Christov PP, Kingsley PJ, Richie-Jannetta RM, Marnett LJ, Stone MP
Identification of inhibitors targeting the energy-coupling factor (ECF) transporters.
1. Commun Biol - published November 2, 2023
2. Diamanti E, Souza PCT, Setyawati I, Bousis S, Gómez LM, Swier LJYM, Shams A, Tsarenko A, Stanek WK, Jäger M, Marrink SJ, Slotboom DJ, Hirsch AKH
Qa-SNARE syntaxin 18 mediates lipid droplet fusion with SNAP23 and SEC22B.
1. Cell Discov - published November 2, 2023
2. Fu Y, Ding B, Liu X, Zhao S, Chen F, Li L, Zhu Y, Zhao J, Yuan Z, Shen Y, Yang C, Shao M, Chen S, Bickel PE, Zhong Q
Antibody-directed evolution reveals a mechanism for enhanced neutralization at the HIV-1 fusion peptide site.
1. Nat Commun - published November 2, 2023
2. Banach BB, Pletnev S, Olia AS, Xu K, Zhang B, Rawi R, Bylund T, Doria-Rose NA, Nguyen TD, Fahad AS, Lee M, Lin BC, Liu T, Louder MK, Madan B, McKee K, O'Dell S, Sastry M, Schön A, Bui N, Shen CH, Wolfe JR, Chuang GY, Mascola JR, Kwong PD, DeKosky BJ
Phages overcome bacterial immunity via diverse anti-defence proteins.
1. Nature - published November 2, 2023
2. Yirmiya E, Leavitt A, Lu A, Ragucci AE, Avraham C, Osterman I, Garb J, Antine SP, Mooney SE, Hobbs SJ, Kranzusch PJ, Amitai G, Sorek R
Electron counting with direct electron detectors in MicroED.
1. Structure - published November 2, 2023
2. Hattne J, Clabbers MTB, Martynowycz MW, Gonen T
HIV-2 inhibits HIV-1 gene expression via two independent mechanisms during cellular co-infection.
1. J Virol - published November 2, 2023
2. Yapo V, Majumder K, Tedbury PR, Wen X, Ong YT, Johnson MC, Sarafianos SG
Structural insights into intron catalysis and dynamics during splicing.
1. Nature - published November 2, 2023
2. Xu L, Liu T, Chung K, Pyle AM
The mechanism of Gα(q) regulation of PLCβ3-catalyzed PIP2 hydrolysis.
1. Proc Natl Acad Sci U S A - published November 2, 2023
2. Falzone ME, MacKinnon R
Structural insights into cytokine cleavage by inflammatory caspase-4.
1. Nature - published November 2, 2023
2. Devant P, Dong Y, Mintseris J, Ma W, Gygi SP, Wu H, Kagan JC
Structural basis of Gabija anti-phage defence and viral immune evasion.
1. Nature - published November 2, 2023
2. Antine SP, Johnson AG, Mooney SE, Leavitt A, Mayer ML, Yirmiya E, Amitai G, Sorek R, Kranzusch PJ
Intermediate conformations of CD4-bound HIV-1 Env heterotrimers.
1. Nature - published November 2, 2023
2. Dam KA, Fan C, Yang Z, Bjorkman PJ
Vicia faba SV channel VfTPC1 is a hyperexcitable variant of plant vacuole Two Pore Channels.
1. Elife - published November 2, 2023
2. Lu J, Dreyer I, Dickinson MS, Panzer S, Jaślan D, Navarro-Retamal C, Geiger D, Terpitz U, Becker D, Stroud RM, Marten I, Hedrich R
Engineering Therapeutic Monoclonal Antibodies.
1. J Allergy Clin Immunol - published November 2, 2023
2. Stone CA Jr, Spiller BW, Smith SA
Molecular basis of opioid receptor signaling.
1. Cell - published November 2, 2023
2. Che T, Roth BL
Uncovering the functional diversity of rare CRISPR-Cas systems with deep terascale clustering.
1. Science - published November 2, 2023
2. Altae-Tran H, Kannan S, Suberski AJ, Mears KS, Demircioglu FE, Moeller L, Kocalar S, Oshiro R, Makarova KS, Macrae RK, Koonin EV, Zhang F
Structural architecture of the acidic region of the B domain of coagulation factor V.
1. J Thromb Haemost - published November 2, 2023
2. Mohammed BM, Basore K, Summers B, Pelc LA, Di Cera E
Azetidine ring, salicylic acid, and salicylic acid bioisosteres as determinants of the binding characteristics of novel potent compounds to Stat3.
1. Bioorg Med Chem Lett - published November 2, 2023
2. Chen Y, Zhai N, Zhu Y, Yue P, Verma N, Brotherton-Pleiss C, Fu W, Nakamura K, Chen W, Kawakami J, Murali R, Tius MA, Lopez-Tapia F, Turkson J
Renin and renin blockade have no role in complement activity.
1. Kidney Int - published November 2, 2023
2. Zhang Y, Martin B, Spies MA, Roberts SM, Nott J, Goodfellow RX, Nelson AF, Blain SJ, Redondo E, Nester CM, Smith RJ
A chemosensory-like histidine kinase is dispensable for chemotaxis in vitro but regulates the virulence of Borrelia burgdorferi through modulating the stability of RpoS.
1. PLoS Pathog - published November 2, 2023
2. Sze CW, Zhang K, Lynch MJ, Iyer R, Crane BR, Schwartz I, Li C
OVOL2 sustains postnatal thymic epithelial cell identity.
1. Nat Commun - published November 2, 2023
2. Zhong X, Peddada N, Wang J, Moresco JJ, Zhan X, Shelton JM, SoRelle JA, Keller K, Lazaro DR, Moresco EMY, Choi JH, Beutler B
Baited reconstruction with 2D template matching for high-resolution structure determination in vitro and in vivo without template bias.
1. Elife - published November 2, 2023
2. Lucas BA, Himes BA, Grigorieff N
Feasibility and performance of cross-clone raman calibration Models in CHO cultivation.
1. Biotechnol J - published November 2, 2023
2. Machleid R, Hoehse M, Scholze S, Mazarakis K, Nilsson D, Johansson E, Zehe C, Trygg J, Grimm C, Surowiec I
Unexpected dynamics in femtomolar complexes of binding proteins with peptides.
1. Nat Commun - published November 2, 2023
2. Cucuzza S, Sitnik M, Jurt S, Michel E, Dai W, Müntener T, Ernst P, Häussinger D, Plückthun A, Zerbe O
Angucyclinones rescue PhLOPS(A) antibiotic activity by inhibiting Cfr-dependent antibiotic resistance.
1. mBio - published November 2, 2023
2. Schaenzer AJ, Rodriguez Hernandez A, Tsai K, Hobson C, Fujimori DG, Wright GD
Poc1 is a basal body inner junction protein that promotes triplet microtubule integrity and interconnections.
1. bioRxiv - published November 2, 2023
2. Ruehle MD, Li S, Agard DA, Pearson CG
Multiplexed 3D Analysis of Cell Plasticity and Immune Niches in Melanoma.
1. bioRxiv - published November 2, 2023
2. Yapp C, Nirmal AJ, Zhou F, Maliga Z, Llopis PM, Murphy GF, Lian CG, Danuser G, Santagata S, Sorger PK
A Life of Translocations.
1. Annu Rev Biochem - published November 2, 2023
2. Rapoport TA
Identification of recG genetic interactions in Escherichia coli by transposon sequencing.
1. J Bacteriol - published November 2, 2023
2. Bonde NJ, Wood EA, Myers KS, Place M, Keck JL, Cox MM
FOXP3 recognizes microsatellites and bridges DNA through multimerization.
1. Nature - published November 2, 2023
2. Zhang W, Leng F, Wang X, Ramirez RN, Park J, Benoist C, Hur S
High frequency of HIV precursor-target-specific B cells in sub-Saharan populations.
1. Cell Rep - published November 2, 2023
2. Matassoli F, Cagigi A, Shen CH, Henry AR, Johnston TS, Schramm CA, Cottrell CA, Kalyuzhniy O, Spangler A, Eller L, Robb M, Eller M, Naluyima P, Kwong PD, Douek DC, Schief WR, Andrews SF, McDermott AB
Cold snapshots of DNA repair: Cryo-EM structures of DNA-PKcs and NHEJ machinery.
1. Prog Biophys Mol Biol - published November 2, 2023
2. Amin H, Zahid S, Hall C, Chaplin AK
Engineering of a Fluorescent Protein for a Sensing of an Intrinsically Disordered Protein through Transition in the Chromophore State.
1. JACS Au - published November 2, 2023
2. Yu TG, Lee J, Yoon J, Choi JM, Kim DG, Heo WD, Song JJ, Kim HS
A broadly reactive antibody targeting the N-terminal domain of SARS-CoV-2 spike confers Fc-mediated protection.
1. Cell Rep Med - published November 2, 2023
2. Adams LJ, VanBlargan LA, Liu Z, Gilchuk P, Zhao H, Chen RE, Raju S, Chong Z, Whitener BM, Shrihari S, Jethva PN, Gross ML, Crowe JE Jr, Whelan SPJ, Diamond MS, Fremont DH
Interaction of mitoxantrone with abasic sites - DNA strand cleavage and inhibition of apurinic/apyrimidinic endonuclease 1, APE1.
1. DNA Repair (Amst) - published November 2, 2023
2. Minko IG, Moellmer SA, Luzadder MM, Tomar R, Stone MP, McCullough AK, Stephen Lloyd R
Sec7 regulatory domains scaffold autoinhibited and active conformations.
1. bioRxiv - published November 2, 2023
2. Brownfield BA, Richardson BC, Halaby SL, Fromme JC
A cholesterol switch controls phospholipid scrambling by G protein-coupled receptors.
1. bioRxiv - published November 2, 2023
2. Menon I, Sych T, Son Y, Morizumi T, Lee J, Ernst OP, Khelashvili G, Sezgin E, Levitz J, Menon AK
A New Drug Discovery Platform: Application to DNA Polymerase Eta and Apurinic/Apyrimidinic Endonuclease 1.
1. Int J Mol Sci - published November 2, 2023
2. Das D, Duncton MAJ, Georgiadis TM, Pellicena P, Clark J, Sobol RW, Georgiadis MM, King-Underwood J, Jobes DV, Chang C, Gao Y, Deacon AM, Wilson DM 3rd
Allosteric Competition and Inhibition in AMPA Receptors.
1. bioRxiv - published November 2, 2023
2. Hale WD, Romero AM, Gonzalez CU, Jayaraman V, Lau AY, Huganir RL, Twomey EC
Community recommendations on cryoEM data archiving and validation: Outcomes of a wwPDB/EMDB workshop on cryoEM data management, deposition and validation.
1. ArXiv - published November 2, 2023
2. Kleywegt GJ, Adams PD, Butcher SJ, Lawson C, Rohou A, Rosenthal PB, Subramaniam S, Topf M, Abbott S, Baldwin PR, Berrisford JM, Bricogne G, Choudhary P, Croll TI, Danev R, Ganesan SJ, Grant T, Gutmanas A, Henderson R, Heymann JB, Huiskonen JT, Istrate A, Kato T, Lander GC, Lok SM, Ludtke SJ, Pye R, Pintilie GD, Richardson JS, Sachse C, Salih O, Scheres SHW, Sorzano COS, Stagg SM, Wang Z, Warshamanage R, Westbrook JD, Winn MD, Young JY, Burley SK, Hoch JC, Kurisu G, Morris K, Patwardhan A, Velankar S
Structure of Transmembrane AMPA Receptor Regulatory Protein Subunit γ2.
1. bioRxiv - published November 2, 2023
2. Hale WD, Romero AM, Huganir RL, Twomey EC
Spartin-mediated lipid transfer facilitates lipid droplet turnover.
1. bioRxiv - published November 2, 2023
2. Wan N, Hong Z, Parson MAH, Korfhage J, Burke JE, Melia TJ, Reinisch KM
Use of TSAR, Thermal Shift Analysis in R, to identify Folic Acid as a Molecule that Interacts with HIV-1 Capsid.
1. bioRxiv - published November 2, 2023
2. Gao X, McFadden WM, Wen X, Emanuelli A, Lorson ZC, Zheng H, Kirby KA, Sarafianos SG
Tertiary folds of the SL5 RNA from the 5' proximal region of SARS-CoV-2 and related coronaviruses.
1. bioRxiv - published November 2, 2023
2. Kretsch RC, Xu L, Zheludev IN, Zhou X, Huang R, Nye G, Li S, Zhang K, Chiu W, Das R
A novel antifolate suppresses growth of FPGS-deficient cells and overcomes methotrexate resistance.
1. Life Sci Alliance - published November 1, 2023
2. van der Krift F, Zijlmans DW, Shukla R, Javed A, Koukos PI, Schwarz LL, Timmermans-Sprang EP, Maas PE, Gahtory D, van den Nieuwboer M, Mol JA, Strous GJ, Bonvin AM, van der Stelt M, Veldhuizen EJ, Weingarth M, Vermeulen M, Klumperman J, Maurice MM
Structure shows that the BIR2 domain of E3 ligase XIAP binds across the RIPK2 kinase dimer interface.
1. Life Sci Alliance - published November 1, 2023
2. Lethier M, Huard K, Hons M, Favier A, Brutscher B, Boeri Erba E, Abbott DW, Cusack S, Pellegrini E
TERSE/PROLIX (TRPX) - a new algorithm for fast and lossless compression and decompression of diffraction and cryo-EM data.
1. Acta Crystallogr A Found Adv - published November 1, 2023
2. Matinyan S, Abrahams JP
Mechanisms by which the cystic fibrosis transmembrane conductance regulator may influence SARS-CoV-2 infection and COVID-19 disease severity.
1. FASEB J - published November 1, 2023
2. Tedbury PR, Manfredi C, Degenhardt F, Conway J, Horwath MC, McCracken C, Sorscher AJ, Moreau S, Wright C, Edwards C, Brewer J, Guarner J, de Wit E, Williamson BN, Suthar MS, Ong YT, Roback JD, Alter DN, Holter JC, Karlsen TH, Sacchi N, Romero-Gómez M, Invernizzi P, Fernández J, Buti M, Albillos A, Julià A, Valenti L, Asselta R, Banales JM, Bujanda L, de Cid R, Franke A, Severe COVID-19 GWAS group, Sarafianos SG, Hong JS, Sorscher EJ, Ehrhardt A
Autoinhibited kinesin-1 adopts a hierarchical folding pattern.
1. Elife - published November 1, 2023
2. Tan Z, Yue Y, Leprevost F, Haynes S, Basrur V, Nesvizhskii AI, Verhey KJ, Cianfrocco MA
Development of a covalent cereblon-based PROTAC employing a fluorosulfate warhead.
1. RSC Chem Biol - published November 1, 2023
2. Nowak RP, Ragosta L, Huerta F, Liu H, Ficarro SB, Cruite JT, Metivier RJ, Donovan KA, Marto JA, Fischer ES, Zerfas BL, Jones LH
Regulation of the heterochromatin spreading reaction by trans-acting factors.
1. Open Biol - published November 1, 2023
2. Hamali B, Amine AAA, Al-Sady B
Essential requirement for IER3IP1 in B cell development.
1. Proc Natl Acad Sci U S A - published November 1, 2023
2. Zhong X, Moresco JJ, Keller K, Lazaro DR, Ely C, Moresco EMY, Beutler B, Choi JH
Aster-dependent nonvesicular transport facilitates dietary cholesterol uptake.
1. Science - published November 1, 2023
2. Ferrari A, Whang E, Xiao X, Kennelly JP, Romartinez-Alonso B, Mack JJ, Weston T, Chen K, Kim Y, Tol MJ, Bideyan L, Nguyen A, Gao Y, Cui L, Bedard AH, Sandhu J, Lee SD, Fairall L, Williams KJ, Song W, Munguia P, Russell RA, Martin MG, Jung ME, Jiang H, Schwabe JWR, Young SG, Tontonoz P
Preparing for the next pandemic.
1. Science - published November 1, 2023
2. Shoichet BK, Craik CS
Non-canonical MLL1 activity regulates centromeric phase separation and genome stability.
1. Nat Cell Biol - published November 1, 2023
2. Sha L, Yang Z, An S, Yang W, Kim S, Oh H, Xu J, Yin J, Wang H, Lenz HJ, An W, Cho US, Dou Y
The linkage-type and the exchange molecule affect the protein-labeling efficiency of iminoboronate probes.
1. Org Biomol Chem - published November 1, 2023
2. van der Zouwen AJ, Jeucken A, van der Pol E, Boerema G, Slotboom DJ, Witte MD
Self-reversal facilitates the resolution of HMCES DNA-protein crosslinks in cells.
1. Cell Rep - published November 1, 2023
2. Rua-Fernandez J, Lovejoy CA, Mehta KPM, Paulin KA, Toudji YT, Giansanti C, Eichman BF, Cortez D
The E3 ligase Riplet promotes RIG-I signaling independent of RIG-I oligomerization.
1. Nat Commun - published November 1, 2023
2. Wang W, Götte B, Guo R, Pyle AM
Integrated chemical and genetic screens unveil FSP1 mechanisms of ferroptosis regulation.
1. Nat Struct Mol Biol - published November 1, 2023
2. Nakamura T, Mishima E, Yamada N, Mourão ASD, Trümbach D, Doll S, Wanninger J, Lytton E, Sennhenn P, Nishida Xavier da Silva T, Angeli JPF, Sattler M, Proneth B, Conrad M
Environmental Toxicant Exposure Paralyzes Human Placental Macrophage Responses to Microbial Threat.
1. ACS Infect Dis - published November 1, 2023
2. Stephens VR, Moore RE, Spicer SK, Talbert JA, Lu J, Chinni R, Chambers SA, Townsend SD, Manning SD, Rogers LM, Aronoff DM, Vue Z, Neikirk K, Hinton AO Jr, Damo SM, Noble KN, Eastman AJ, McCallister MM, Osteen KG, Gaddy JA
Cross-Platform Identification and Validation of Uveal Melanoma Vitreous Protein Biomarkers.
1. Invest Ophthalmol Vis Sci - published November 1, 2023
2. Velez G, Wolf J, Dufour A, Mruthyunjaya P, Mahajan VB
3D reconstruction of murine mitochondria reveals changes in structure during aging linked to the MICOS complex.
1. Aging Cell - published November 1, 2023
2. Vue Z, Garza-Lopez E, Neikirk K, Katti P, Vang L, Beasley H, Shao J, Marshall AG, Crabtree A, Murphy AC, Jenkins BC, Prasad P, Evans C, Taylor B, Mungai M, Killion M, Stephens D, Christensen TA, Lam J, Rodriguez B, Phillips MA, Daneshgar N, Koh HJ, Koh A, Davis J, Devine N, Muhammod S, Scudese E, Arnold KR, Vanessa Chavarin V, Daniel Robinson R, Chakraborty M, Gaddy JA, Sweetwyne MT, Wilson G, Zaganjor E, Kezos J, Dondi C, Reddy AK, Glancy B, Kirabo A, Quintana AM, Dai DF, Ocorr K, Murray SA, Damo SM, Exil V, Riggs B, Mobley BC, Gomez JA, McReynolds MR, Hinton A Jr
Maturation of the [FeFe]-Hydrogenase: Direct Transfer of the (κ3-cysteinate)FeII(CN)(CO)2 Complex-B from HydG to HydE.
1. Angew Chem Int Ed Engl - published November 1, 2023
2. Omeiri J, Martin L, Usclat A, Cherrier MV, Nicolet Y
Removal of a partial genomic duplication restores synaptic transmission and behavior in the MyosinVA mutant mouse Flailer.
1. BMC Biol - published November 1, 2023
2. Bustos FJ, Pandian S, Haensgen H, Zhao JP, Strouf H, Heidenreich M, Swiech L, Deverman BE, Gradinaru V, Zhang F, Constantine-Paton M
Cucurbit[7]uril Enhances Distance Measurements of Spin-Labeled Proteins.
1. J Am Chem Soc - published November 1, 2023
2. Yang Z, Stein RA, Pink M, Madzelan P, Ngendahimana T, Rajca S, Wilson MA, Eaton SS, Eaton GR, Mchaourab HS, Rajca A
Cryo-EM structure of the Spo11 core complex bound to DNA.
1. bioRxiv - published November 1, 2023
2. Yu Y, Wang J, Liu K, Zheng Z, Arter M, Bouuaert CC, Pu S, Patel DJ, Keeney S
Quality Control for Single Cell Analysis of High-plex Tissue Profiles using CyLinter.
1. bioRxiv - published November 1, 2023
2. Baker GJ, Novikov E, Zhao Z, Vallius T, Davis JA, Lin JR, Muhlich JL, Mittendorf EA, Santagata S, Guerriero JL, Sorger PK
Single-cell analysis of memory B cells from top neutralizers reveals multiple sites of vulnerability within HCMV Trimer and Pentamer.
1. Immunity - published November 1, 2023
2. Zehner M, Alt M, Ashurov A, Goldsmith JA, Spies R, Weiler N, Lerma J, Gieselmann L, Stöhr D, Gruell H, Schultz EP, Kreer C, Schlachter L, Janicki H, Laib Sampaio K, Stegmann C, Nemetchek MD, Dähling S, Ullrich L, Dittmer U, Witzke O, Koch M, Ryckman BJ, Lotfi R, McLellan JS, Krawczyk A, Sinzger C, Klein F
Handling Difficult Cryo-ET Samples: A Study with Primary Neurons from Drosophila melanogaster.
1. Microsc Microanal - published November 1, 2023
2. Kim JY, Yang JE, Mitchell JW, English LA, Yang SZ, Tenpas T, Dent EW, Wildonger J, Wright ER
Clostridioides difficile ferrosome organelles combat nutritional immunity.
1. Nature - published November 1, 2023
2. Pi H, Sun R, McBride JR, Kruse ARS, Gibson-Corley KN, Krystofiak ES, Nicholson MR, Spraggins JM, Zhou Q, Skaar EP
Rapid, high throughput, automated detection of SARS-CoV-2 neutralizing antibodies against Wuhan-WT, delta and omicron BA1, BA2 spike trimers.
1. iScience - published November 1, 2023
2. Cheedarla N, Verkerke HP, Potlapalli S, McLendon KB, Patel A, Frank F, O'Sick WH, Cheedarla S, Baugh TJ, Damhorst GL, Wu H, Graciaa D, Hudaib F, Alter DN, Bryksin J, Ortlund EA, Guarner J, Auld S, Shah S, Lam W, Mattoon D, Johnson JM, Wilson DH, Dhodapkar MV, Stowell SR, Neish AS, Roback JD
A Ph-Responsive Virus-Like Particle (VLP) as A Protein Cage for A Targeted Delivery.
1. Adv Healthc Mater - published November 1, 2023
2. Kim KJ, Kim G, Bae JH, Song JJ, Kim HS
Structural and biochemical analysis of the PARP1-homology region of PARP4/vault PARP.
1. Nucleic Acids Res - published November 1, 2023
2. Frigon L, Pascal JM
Time-resolved live-cell spectroscopy reveals EphA2 multimeric assembly.
1. Science - published November 1, 2023
2. Shi X, Lingerak R, Herting CJ, Ge Y, Kim S, Toth P, Wang W, Brown BP, Meiler J, Sossey-Alaoui K, Buck M, Himanen J, Hambardzumyan D, Nikolov DB, Smith AW, Wang B
Development and Pharmacochemical Characterization Discover a Novel Brain-Permeable HDAC11-Selective Inhibitor with Therapeutic Potential by Regulating Neuroinflammation in Mice.
1. J Med Chem - published November 1, 2023
2. Bai P, Liu Y, Yang L, Ding W, Mondal P, Sang N, Liu G, Lu X, Ho TT, Zhou Y, Wu R, Birar VC, Wilks MQ, Tanzi RE, Lin H, Zhang C, Li W, Shen S, Wang C
Retraction Note: Eye tracking: empirical foundations for a minimal reporting guideline.
1. Behav Res Methods - published November 1, 2023
2. Holmqvist K, Örbom SL, Hooge ITC, Niehorster DC, Alexander RG, Andersson R, Benjamins JS, Blignaut P, Brouwer AM, Chuang LL, Dalrymple KA, Drieghe D, Dunn MJ, Ettinger U, Fiedler S, Foulsham T, van der Geest JN, Hansen DW, Hutton SB, Kasneci E, Kingstone A, Knox PC, Kok EM, Lee H, Lee JY, Leppänen JM, Macknik S, Majaranta P, Martinez-Conde S, Nuthmann A, Nyström M, Orquin JL, Otero-Millan J, Park SY, Popelka S, Proudlock F, Renkewitz F, Roorda A, Schulte-Mecklenbeck M, Sharif B, Shic F, Shovman M, Thomas MG, Venrooij W, Zemblys R, Hessels RS
Improving resolution and resolvability of single-particle cryoEM structures using Gaussian mixture models.
1. Nat Methods - published November 1, 2023
2. Chen M, Schmid MF, Chiu W
Serine-rich repeat proteins: well-known yet little-understood bacterial adhesins.
1. J Bacteriol - published November 1, 2023
2. Cinar MS, Niyas A, Avci FY
Mutation of key signaling regulators of cerebrovascular development in vein of Galen malformations.
1. Nat Commun - published November 1, 2023
2. Zhao S, Mekbib KY, van der Ent MA, Allington G, Prendergast A, Chau JE, Smith H, Shohfi J, Ocken J, Duran D, Furey CG, Hao LT, Duy PQ, Reeves BC, Zhang J, Nelson-Williams C, Chen D, Li B, Nottoli T, Bai S, Rolle M, Zeng X, Dong W, Fu PY, Wang YC, Mane S, Piwowarczyk P, Fehnel KP, See AP, Iskandar BJ, Aagaard-Kienitz B, Moyer QJ, Dennis E, Kiziltug E, Kundishora AJ, DeSpenza T Jr, Greenberg ABW, Kidanemariam SM, Hale AT, Johnston JM, Jackson EM, Storm PB, Lang SS, Butler WE, Carter BS, Chapman P, Stapleton CJ, Patel AB, Rodesch G, Smajda S, Berenstein A, Barak T, Erson-Omay EZ, Zhao H, Moreno-De-Luca A, Proctor MR, Smith ER, Orbach DB, Alper SL, Nicoli S, Boggon TJ, Lifton RP, Gunel M, King PD, Jin SC, Kahle KT
Discovery of potent chromone-based autotaxin inhibitors inspired by cannabinoids.
1. Eur J Med Chem - published November 1, 2023
2. Eymery MC, Nguyen KA, Basu S, Hausmann J, Tran-Nguyen VK, Seidel HP, Gutierrez L, Boumendjel A, McCarthy AA
Protocol for an in vitro assay to study HIV-1 Tat methylation.
1. STAR Protoc - published November 1, 2023
2. Boehm D, Kaehlcke K, Schnoelzer M, Ott M
Evolution of the SARS-CoV-2 Omicron spike.
1. Cell Rep - published November 1, 2023
2. Parsons RJ, Acharya P
Simultaneous selection of nanobodies for accessible epitopes on immune cells in the tumor microenvironment.
1. Nat Commun - published November 1, 2023
2. Sekar TV, Elghonaimy EA, Swancutt KL, Diegeler S, Gonzalez I, Hamilton C, Leung PQ, Meiler J, Martina CE, Whitney M, Aguilera TA
Dark nanodiscs for evaluating membrane protein thermostability by differential scanning fluorimetry.
1. Biophys J - published November 1, 2023
2. Selvasingh JA, McDonald EF, Neufer PD, McKinney JR, Meiler J, Ledwitch KV
Insertion of GGMP repeat residues of Plasmodium falciparum Hsp70-1 in the lid of DnaK adversely impacts client recognition.
1. Int J Biol Macromol - published November 1, 2023
2. Dongola TH, Chakafana G, Middlemiss C, Mafethe O, Mokoena F, Zininga T, Shonhai A
Cholesterol regulates plasma membrane bending by prominin-family proteins.
1. bioRxiv - published November 1, 2023
2. Bell TA, Luce BE, Hakim P, Dardari H, Ananda VY, Nguyen TH, Monshizadeh A, Chao LH
2D and 3D multiplexed subcellular profiling of nuclear instability in human cancer.
1. bioRxiv - published November 1, 2023
2. Coy S, Cheng B, Lee JS, Rashid R, Browning L, Xu Y, Chakrabarty SS, Yapp C, Chan S, Tefft JB, Scott E, Spektor A, Ligon KL, Baker GJ, Pellman D, Sorger PK, Santagata S
Contactin 2 homophilic adhesion structure and conformational plasticity.
1. Structure - published November 1, 2023
2. Chataigner LMP, Thärichen L, Beugelink JW, Granneman JCM, Mokiem NJ, Snijder J, Förster F, Janssen BJC
A High-Throughput, High-Containment Human Primary Epithelial Airway Organ-on-Chip Platform for SARS-CoV-2 Therapeutic Screening.
1. Cells - published November 1, 2023
2. Fisher CR, Mba Medie F, Luu RJ, Gaibler RB, Mulhern TJ, Miller CR, Zhang CJ, Rubio LD, Marr EE, Vijayakumar V, Gabriel EP, Lopez Quezada L, Zhang CH, Anderson KS, Jorgensen WL, Alladina JW, Medoff BD, Borenstein JT, Gard AL
Depletion of Labile Iron Induces Replication Stress and Enhances Responses to Chemoradiation in Non-Small-Cell Lung Cancer.
1. Antioxidants (Basel) - published November 1, 2023
2. Bayanbold K, Singhania M, Fath MA, Searby CC, Stolwijk JM, Henrich JB, Pulliam CF, Schoenfeld JD, Mapuskar KA, Sho S, Caster JM, Allen BG, Buettner GR, Spies M, Goswami PC, Petronek MS, Spitz DR
Engineered odorant receptors illuminate structural principles of odor discrimination.
1. bioRxiv - published November 1, 2023
2. de March CA, Ma N, Billesbølle CB, Tewari J, Del Torrent CL, van der Velden WJC, Ojiro I, Takayama I, Faust B, Li L, Vaidehi N, Manglik A, Matsunami H
Cell Spotter (CSPOT): A machine-learning approach to automated cell spotting and quantification of highly multiplexed tissue images.
1. bioRxiv - published November 1, 2023
2. Nirmal AJ, Yapp C, Santagata S, Sorger PK
Deep learning assisted single particle tracking for automated correlation between diffusion and function.
1. bioRxiv - published November 1, 2023
2. Kæstel-Hansen J, de Sautu M, Saminathan A, Scanavachi G, Da Cunha Correia RFB, Nielsen AJ, Bleshøy SV, Boomsma W, Kirchhausen T, Hatzakis NS
Structural and functional basis of VLDLR receptor usage by Eastern equine encephalitis virus.
1. bioRxiv - published November 1, 2023
2. Adams LJ, Raju S, Ma H, Gilliland T Jr, Reed DS, Klimstra WB, Fremont DH, Diamond MS
SpatialCells: Automated Profiling of Tumor Microenvironments with Spatially Resolved Multiplexed Single-Cell Data.
1. bioRxiv - published November 1, 2023
2. Wan G, Maliga Z, Yan B, Vallius T, Shi Y, Khattab S, Chang C, Nirmal AJ, Yu KH, Liu D, Lian CG, DeSimone MS, Sorger PK, Semenov YR