Member Publications

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127 Member Publications for December 2023

Utilizing a cell-free protein synthesis platform for the biosynthesis of a natural product, caffeine.
1. Synth Biol (Oxf) - published December 27, 2023
2. Ditzel A, Zhao F, Gao X, Phillips GN Jr
Assembly-mediated activation of the SIR2-HerA supramolecular complex for anti-phage defense.
1. Mol Cell - published December 8, 2023
2. Shen Z, Lin Q, Yang XY, Fosuah E, Fu TM
Using alternative SMILES representations to identify novel functional analogues in chemical similarity vector searches.
1. Patterns (N Y) - published December 8, 2023
2. Kosonocky CW, Feller AL, Wilke CO, Ellington AD
Cooperative Gsx2-DNA Binding Requires DNA Bending and a Novel Gsx2 Homeodomain Interface.
1. bioRxiv - published December 8, 2023
2. Webb JA, Farrow E, Cain B, Yuan Z, Yarawsky AE, Schoch E, Gagliani EK, Herr AB, Gebelein B, Kovall RA
SIRT5 variants from patients with mitochondrial disease are associated with reduced SIRT5 stability and activity, but not with neuropathology.
1. bioRxiv - published December 8, 2023
2. Yuan T, Kumar S, Skinner M, Victor-Joseph R, Abuaita M, Keijer J, Zhang J, Kunkel TJ, Liu Y, Petrunak EM, Saunders TL, Lieberman AP, Stuckey JA, Neamati N, Al-Murshedi F, Alfadhel M, Spelbrink JN, Rodenburg R, de Boer VCJ, Lombard DB
A Fluorescence-Based Sensor for Calibrated Measurement of Protein Kinase Stability in Live Cells.
1. bioRxiv - published December 8, 2023
2. Paul JW 3rd, Muratcioğlu S, Kuriyan J
A Constitutive EGFR Kinase Dimer to Study Inhibitor Pharmacology.
1. Mol Pharmacol - published December 8, 2023
2. Kim JJ, Schaeffner IK, Heppner DE, To C, Jänne PA, Beyett TS, Eck MJ
Kinetic FRET Assay to Measure Binding-Induced Conformational Changes of Nucleic Acids.
1. ACS Sens - published December 7, 2023
2. Higuera-Rodriguez RA, De Pascali MC, Aziz M, Sattler M, Rant U, Kaiser W
Go big and go home: A bulky extension makes promiscuous ligands settle down.
1. Structure - published December 7, 2023
2. Yu X, Kojetin DJ
Quantifying nanoparticle delivery: challenges, tools, and advances.
1. Curr Opin Biotechnol - published December 7, 2023
2. Mata Corral MY, Alvarez DE, Poon W
Structural Basis of μ-Opioid Receptor-Targeting by a Nanobody Antagonist.
1. bioRxiv - published December 7, 2023
2. Yu J, Kumar A, Zhang X, Martin C, Raia P, Koehl A, Laeremans T, Steyaert J, Manglik A, Ballet S, Boland A, Stoeber M
Design and structural validation of peptide-drug conjugate ligands of the kappa-opioid receptor.
1. Nat Commun - published December 6, 2023
2. Muratspahić E, Deibler K, Han J, Tomašević N, Jadhav KB, Olivé-Marti AL, Hochrainer N, Hellinger R, Koehbach J, Fay JF, Rahman MH, Hegazy L, Craven TW, Varga BR, Bhardwaj G, Appourchaux K, Majumdar S, Muttenthaler M, Hosseinzadeh P, Craik DJ, Spetea M, Che T, Baker D, Gruber CW
Metabolites 13,14-Dihydro-15-keto-PGE2 Participates in Bifidobacterium animalis F1-7 to Alleviate Opioid-Induced Constipation by 5-HT Pathway.
1. Mol Nutr Food Res - published December 6, 2023
2. Lu Y, Zhou X, Wu Y, Cui Q, Tian X, Yi H, Gong P, Zhang L
Docking for EP4R antagonists active against inflammatory pain.
1. Nat Commun - published December 6, 2023
2. Gahbauer S, DeLeon C, Braz JM, Craik V, Kang HJ, Wan X, Huang XP, Billesbølle CB, Liu Y, Che T, Deshpande I, Jewell M, Fink EA, Kondratov IS, Moroz YS, Irwin JJ, Basbaum AI, Roth BL, Shoichet BK
An in vitro experimental pipeline to characterize the epitope of a SARS-CoV-2 neutralizing antibody.
1. mBio - published December 6, 2023
2. Atanasoff KE, Brambilla L, Adelsberg DC, Kowdle S, Stevens CS, Slamanig S, Hung C-T, Fu Y, Lim R, Tran L, Allen R, Sun W, Duty JA, Bajic G, Lee B, Tortorella D
Folding of prestin's anion-binding site and the mechanism of outer hair cell electromotility.
1. Elife - published December 6, 2023
2. Lin X, Haller PR, Bavi N, Faruk N, Perozo E, Sosnick TR
Structural basis of branching during RNA splicing.
1. Nat Struct Mol Biol - published December 6, 2023
2. Haack DB, Rudolfs B, Zhang C, Lyumkis D, Toor N
Atg18 oligomer organization in assembled tubes and on lipid membrane scaffolds.
1. Nat Commun - published December 6, 2023
2. Mann D, Fromm SA, Martinez-Sanchez A, Gopaldass N, Choy R, Mayer A, Sachse C
Into the dark serum proteome: personalized features of IgG1 and IgA1 repertoires in severe COVID-19 patients.
1. Mol Cell Proteomics - published December 6, 2023
2. Bondt A, Hoek M, Dingess K, Tamara S, de Graaf B, Peng W, den Boer MA, Damen M, Zwart C, Barendregt A, van Rijswijck DMH, Schulte D, Grobben M, Tejjani K, van Rijswijk J, Völlmy F, Snijder J, Fortini F, Papi A, Volta CA, Campo G, Contoli M, van Gils MJ, Spadaro S, Rizzo P, Heck AJR
Degradation and Transformation Mechanisms of Zanthoxylum Alkylamides Exposed to UVB Light.
1. Foods - published December 6, 2023
2. Wang R, Rao C, Liu Q, Liu X
Tad and toxin-coregulated pilus structures reveal unexpected diversity in bacterial type IV pili.
1. Proc Natl Acad Sci U S A - published December 5, 2023
2. Sonani RR, Sanchez JC, Baumgardt JK, Kundra S, Wright ER, Craig L, Egelman EH
STAT3 palmitoylation initiates a positive feedback loop that promotes the malignancy of hepatocellular carcinoma cells in mice.
1. Sci Signal - published December 5, 2023
2. Jiang Y, Xu Y, Zhu C, Xu G, Xu L, Rao Z, Zhou L, Jiang P, Malik S, Fang J, Lin H, Zhang M
The mating pilus of E. coli pED208 acts as a conduit for ssDNA during horizontal gene transfer.
1. mBio - published December 5, 2023
2. Beltrán L, Torsilieri H, Patkowski JB, Yang JE, Casanova J, Costa TRD, Wright ER, Egelman EH
Functional divergence of a bacterial enzyme promotes healthy or acneic skin.
1. Nat Commun - published December 5, 2023
2. Hajam IA, Katiki M, McNally R, Lázaro-Díez M, Kolar S, Chatterjee A, Gonzalez C, Paulchakrabarti M, Choudhury B, Caldera JR, Desmond T, Tsai CM, Du X, Li H, Murali R, Liu GY
The molecular basis of translation initiation and its regulation in eukaryotes.
1. Nat Rev Mol Cell Biol - published December 5, 2023
2. Brito Querido J, Díaz-López I, Ramakrishnan V
Discovery of KRB-456, a KRAS G12D switch-I/II allosteric pocket binder that inhibits the growth of pancreatic cancer patient-derived tumors.
1. Cancer Res Commun - published December 5, 2023
2. Kazi A, Ranjan A, Kumar M V V, Agianian B, Garcia Chavez M, Vudatha V, Wang R, Vangipurapu R, Chen L, Kennedy P, Subramanian K, Quirke JCK, Beato F, Underwood P, Fleming JB, Trevino J, Hergenrother PJ, Gavathiotis E, Sebti SM
CD62L expression marks a functionally distinct subset of memory B cells.
1. Cell Rep - published December 5, 2023
2. Hanson CH, Henry B, Andhare P, Lin FJ, Pak H, Turner JS, Adams LJ, Liu T, Fremont DH, Ellebedy AH, Laidlaw BJ
SAP30BP interacts with RBM17/SPF45 to promote splicing in a subset of human short introns.
1. Cell Rep - published December 5, 2023
2. Fukumura K, Sperotto L, Seuß S, Kang HS, Yoshimoto R, Sattler M, Mayeda A
Nitrogenase beyond the Resting State: A Structural Perspective.
1. Molecules - published December 5, 2023
2. Warmack RA, Rees DC
Anti-Tuberculosis Potential of OJT008 against Active and Multi-Drug-Resistant Mycobacterium Tuberculosis: In Silico and In Vitro Inhibition of Methionine Aminopeptidase.
1. Int J Mol Sci - published December 5, 2023
2. Onyenaka C, Idowu KA, Ha NP, Graviss EA, Olaleye OA
COVID-19 risk communication gaps, needs, and strategies related to pandemic preparedness plans among vulnerable, Black American subgroups: A qualitative study.
1. J Natl Med Assoc - published December 5, 2023
2. Cunningham-Erves J, Davis M, Stewart EC, Alexander L, Moss J, Barre I, Parham I, Mayo-Gamble T, Davis J
TCR ligand potency differentially impacts PD-1 inhibitory effects on diverse signaling pathways.
1. J Exp Med - published December 4, 2023
2. Chan W, Cao YM, Zhao X, Schrom EC, Jia D, Song J, Sibener LV, Dong S, Fernandes RA, Bradfield CJ, Smelkinson M, Kabat J, Hor JL, Altan-Bonnet G, Garcia KC, Germain RN
Structural basis for severe pain caused by mutations in the voltage sensors of sodium channel NaV1.7.
1. J Gen Physiol - published December 4, 2023
2. Wisedchaisri G, Gamal El-Din TM, Powell NM, Zheng N, Catterall WA
Plasmodium falciparum utilizes pyrophosphate to fuel an essential proton pump in the ring stage and the transition to trophozoite stage.
1. PLoS Pathog - published December 4, 2023
2. Solebo O, Ling L, Nwankwo I, Zhou J, Fu TM, Ke H
A Flexible, Quantitative Plasmonic-Fluor Lateral Flow Assay for the Rapid Detection of Orthoebolavirus zairense and Orthoebolavirus sudanense.
1. ACS Infect Dis - published December 4, 2023
2. Qavi AJ, Jiang Q, Aman MJ, Vu H, Zetlin L, Dye JM, Froude JW, Leung DW, Holtsberg F, Crick SL, Amarasinghe GK
Subdomain dynamics enable chemical chain reactions in non-ribosomal peptide synthetases.
1. Nat Chem - published December 4, 2023
2. Sun X, Alfermann J, Li H, Watkins MB, Chen YT, Morrell TE, Mayerthaler F, Wang CY, Komatsuzaki T, Chu JW, Ando N, Mootz HD, Yang H
A structure of the relict phycobilisome from a thylakoid-free cyanobacterium.
1. Nat Commun - published December 4, 2023
2. Jiang HW, Wu HY, Wang CH, Yang CH, Ko JT, Ho HC, Tsai MD, Bryant DA, Li FW, Ho MC, Ho MY
Duffy antigen is expressed during erythropoiesis in Duffy-negative individuals.
1. Cell Host Microbe - published December 4, 2023
2. Dechavanne C, Dechavanne S, Bosch J, Metral S, Redinger KR, Watson QD, Ratsimbasoa AC, Roeper B, Krishnan S, Fong R, Bennett S, Carias L, Chen E, Salinas ND, Ghosh A, Tolia NH, Woost PG, Jacobberger JW, Colin Y, Gamain B, King CL, Zimmerman PA
Unraveling the Structure of Meclizine Dihydrochloride with MicroED.
1. Adv Sci (Weinh) - published December 3, 2023
2. Lin J, Unge J, Gonen T
Engineering immunogens that select for specific mutations in HIV broadly neutralizing antibodies.
1. bioRxiv - published December 3, 2023
2. Henderson R, Anasti K, Manne K, Stalls V, Saunders C, Bililign Y, Williams A, Bubphamala P, Montani M, Kachhap S, Li J, Jaing C, Newman A, Cain D, Lu X, Venkatayogi S, Berry M, Wagh K, Korber B, Saunders KO, Tian M, Alt F, Wiehe K, Acharya P, Alam SM, Haynes BF
HIV-1 binds dynein directly to hijack microtubule transport machinery.
1. bioRxiv - published December 2, 2023
2. Badieyan S, Lichon D, Andreas MP, Gillies JP, Peng W, Shi J, DeSantis ME, Aiken CR, Böcking T, Giessen TW, Campbell EM, Cianfrocco MA
Role of PDGFRA(+) cells and a CD55(+) PDGFRA(Lo) fraction in the gastric mesenchymal niche.
1. Nat Commun - published December 2, 2023
2. Manieri E, Tie G, Malagola E, Seruggia D, Madha S, Maglieri A, Huang K, Fujiwara Y, Zhang K, Orkin SH, Wang TC, He R, McCarthy N, Shivdasani RA
Interaction dynamics between innate and adaptive immune cells responding to SARS-CoV-2 vaccination in non-human primates.
1. Nat Commun - published December 2, 2023
2. Schramm CA, Moon D, Peyton L, Lima NS, Wake C, Boswell KL, Henry AR, Laboune F, Ambrozak D, Darko SW, Teng IT, Foulds KE, Carfi A, Edwards DK, Kwong PD, Koup RA, Seder RA, Douek DC
Mechanistic manifold in a hemoprotein-catalyzed cyclopropanation reaction with diazoketone.
1. Nat Commun - published December 2, 2023
2. Nam D, Bacik JP, Khade RL, Aguilera MC, Wei Y, Villada JD, Neidig ML, Zhang Y, Ando N, Fasan R
Targeted mutagenesis of the herpesvirus fusogen central helix captures transition states.
1. Nat Commun - published December 2, 2023
2. Zhou M, Vollmer B, Machala E, Chen M, Grünewald K, Arvin AM, Chiu W, Oliver SL
Development of Phenyl-substituted Isoindolinone- and Benzimidazole-Type Cereblon Ligands for Targeted Protein Degradation.
1. Chembiochem - published December 2, 2023
2. Nie X, Zhao Y, Tang H, Zhang Z, Liao J, Almodovar-Rivera CM, Sundaresan R, Xie H, Guo L, Wang B, Guan H, Xing Y, Tang W
A neutralizing single-domain antibody that targets the trimer interface of the human metapneumovirus fusion protein.
1. mBio - published December 2, 2023
2. Ballegeer M, van Scherpenzeel RC, Delgado T, Iglesias-Caballero M, García Barreno B, Pandey S, Rush SA, Kolkman JA, Mas V, McLellan JS, Saelens X
Structures of the promoter-bound respiratory syncytial virus polymerase.
1. Nature - published December 2, 2023
2. Cao D, Gao Y, Chen Z, Gooneratne I, Roesler C, Mera C, D'Cunha P, Antonova A, Katta D, Romanelli S, Wang Q, Rice S, Lemons W, Ramanathan A, Liang B
Arabidopsis thaliana GLYCINE RICH RNA-BINDING PROTEIN 7 interaction with its iCLIP target LHCB1.1 correlates with changes in RNA stability and circadian oscillation.
1. Plant J - published December 2, 2023
2. Lewinski M, Steffen A, Kachariya N, Elgner M, Schmal C, Messini N, Köster T, Reichel M, Sattler M, Zarnack K, Staiger D
Association between anesthesia technique and death after hip fracture repair for patients with COVID-19.
1. Can J Anaesth - published December 2, 2023
2. Nourouzpour N, Jen TTH, Bailey J, Jobin PG, Sutherland JM, Ho CM, Prabhakar C, Ke JXC
Pitfalls and Considerations in Determining the Potency and Mutant Selectivity of Covalent Epidermal Growth Factor Receptor Inhibitors.
1. J Med Chem - published December 2, 2023
2. Hoyt KW, Urul DA, Ogboo BC, Wittlinger F, Laufer SA, Schaefer EM, May EW, Heppner DE
Expression, purification, and characterization of anuran saxiphilins using thermofluor, fluorescence polarization, and isothermal titration calorimetry.
1. STAR Protoc - published December 2, 2023
2. Chen Z, Zakrzewska S, Hajare HS, Du Bois J, Minor DL Jr
Metabolic Usage and Glycan Destinations of GlcNAz in E. coli.
1. ACS Chem Biol - published December 2, 2023
2. Eddenden A, Dooda MK, Morrison ZA, Shankara Subramanian A, Howell PL, Troutman JM, Nitz M
Structural and functional validation of a highly specific Smurf2 inhibitor.
1. Protein Sci - published December 2, 2023
2. Tessier TM, Chowdhury A, Stekel Z, Fux J, Sartori MA, Teyra J, Jarvik N, Chung J, Kurinov I, Sicheri F, Sidhu SS, Singer AU, Zhang W
GPCR-G protein selectivity revealed by structural pharmacology.
1. FEBS J - published December 2, 2023
2. Bernhard SM, Han J, Che T
Interactome analysis identifies the role of BZW2 in promoting endoplasmic reticulum-mitochondrial contact and mitochondrial metabolism.
1. Mol Cell Proteomics - published December 2, 2023
2. Maio G, Smith M, Bhawal R, Zhang S, Baskin JM, Li J, Lin H
Aromatically stacking the odds in favour of increased ORAI1 activation.
1. Cell Calcium - published December 2, 2023
2. Stathopulos PB, Ikura M
Probing the mechanism by which the retinal G protein transducin activates its biological effector PDE6.
1. J Biol Chem - published December 2, 2023
2. Aplin C, Cerione RA
Structural analysis of membrane-associated forms of Helicobacter pylori VacA toxin.
1. J Mol Biol - published December 2, 2023
2. Connolly SM, Erwin AL, Sabb M, Hanks JL, Chang L, Torrez RM, Caso GC, Campbell AM, Mosalaganti S, Cover TL, Ohi MD
Huang-Lian-Jie-Du decoction drug-containing serum inhibits IL-1β secretion from D-glucose and PA induced BV2 cells via autophagy/NLRP3 signaling.
1. J Ethnopharmacol - published December 2, 2023
2. Tian R, Liu X, Xiao Y, Jing L, Tao H, Yang L, Meng X
Thrombin has dual trypsin-like and chymotrypsin-like specificity.
1. J Thromb Haemost - published December 2, 2023
2. Stojanovski BM, Pelc LA, Di Cera E
Structural and enzymatic evidence for the methylation of the ACK1 tyrosine kinase by the histone lysine methyltransferase SETD2.
1. Biochem Biophys Res Commun - published December 2, 2023
2. Le Coadou L, Berthelet J, Mechaly AE, Michail C, Bui LC, Dairou J, Haouz A, Dupret JM, Rodrigues Lima F
Structural and functional basis of VLDLR usage by Eastern equine encephalitis virus.
1. Cell - published December 2, 2023
2. Adams LJ, Raju S, Ma H, Gilliland T Jr, Reed DS, Klimstra WB, Fremont DH, Diamond MS
Phosphorylation regulates tau's phase separation behavior and interactions with chromatin.
1. bioRxiv - published December 2, 2023
2. Abasi LS, Elathram N, Movva M, Deep A, Corbett KD, Debelouchina GT
De novo design of drug-binding proteins with predictable binding energy and specificity.
1. bioRxiv - published December 2, 2023
2. Lu L, Gou X, Tan SK, Mann SI, Yang H, Zhong X, Gazgalis D, Valdiviezo J, Jo H, Wu Y, Diolaiti ME, Ashworth A, Polizzi NF, DeGrado WF
AlphaFold2 structures template ligand discovery.
1. bioRxiv - published December 2, 2023
2. Lyu J, Kapolka N, Gumpper R, Alon A, Wang L, Jain MK, Barros-Álvarez X, Sakamoto K, Kim Y, DiBerto J, Kim K, Tummino TA, Huang S, Irwin JJ, Tarkhanova OO, Moroz Y, Skiniotis G, Kruse AC, Shoichet BK, Roth BL
STOPGAP, an open-source package for template matching, subtomogram alignment, and classification.
1. bioRxiv - published December 2, 2023
2. Wan W, Khavnekar S, Wagner J
Determination of Binding Affinity of Antibodies to HIV-1 Recombinant Envelope Glycoproteins, Pseudoviruses, Infectious Molecular Clones, and Cell-Expressed Trimeric gp160 Using Microscale Thermophoresis.
1. Cells - published December 2, 2023
2. Basu S, Gohain N, Kim J, Trinh HV, Choe M, Joyce MG, Rao M
Viral Targeting of Importin Alpha-Mediated Nuclear Import to Block Innate Immunity.
1. Cells - published December 2, 2023
2. Vogel OA, Forwood JK, Leung DW, Amarasinghe GK, Basler CF
Streptavidin-Affinity Grid Fabrication for Cryo-Electron Microscopy Sample Preparation.
1. J Vis Exp - published December 2, 2023
2. Cookis T, Sauer P, Poepsel S, Han BG, Herbst DA, Glaeser R, Nogales E
Identification of SLC25A46 interaction interfaces with mitochondrial membrane fusogens Mfn2 and Opa1.
1. bioRxiv - published December 2, 2023
2. Boopathy S, Makhlouta Lugo C, Luce BE, McDonald J, Hakim P, Ponce J, Ueberheide BM, Chao LH
Extraordinary Titer and Broad Anti-SARS-CoV-2 Neutralization Induced by Stabilized RBD Nanoparticles from Strain BA.5.
1. Vaccines (Basel) - published December 2, 2023
2. Wang Z, Zhang B, Ou L, Qiu Q, Wang L, Bylund T, Kong WP, Shi W, Tsybovsky Y, Wu L, Zhou Q, Chaudhary R, Choe M, Dickey TH, El Anbari M, Olia AS, Rawi R, Teng IT, Wang D, Wang S, Tolia NH, Zhou T, Kwong PD
AlphaFold2 enables accurate deorphanization of ligands to single-pass receptors.
1. bioRxiv - published December 1, 2023
2. Danneskiold-Samsøe NB, Kavi D, Jude KM, Nissen SB, Wat LW, Coassolo L, Zhao M, Santana-Oikawa GA, Broido BB, Garcia KC, Svensson KJ
AI-Human Hybrid Workflow Enhances Teleophthalmology for the Detection of Diabetic Retinopathy.
1. Ophthalmol Sci - published December 1, 2023
2. Dow ER, Khan NC, Chen KM, Mishra K, Perera C, Narala R, Basina M, Dang J, Kim M, Levine M, Phadke A, Tan M, Weng K, Do DV, Moshfeghi DM, Mahajan VB, Mruthyunjaya P, Leng T, Myung D
In Memoriam: Dr Carlos A. Pérez-A Trailblazing Legacy of Healing and Innovation.
1. Int J Radiat Oncol Biol Phys - published December 1, 2023
2. Michalski JM, Mutic S, Purdy JA, Hallahan DE, Bradley JD
Using energy to go downhill-a genoprotective role for ATPase activity in DNA topoisomerase II.
1. Nucleic Acids Res - published December 1, 2023
2. Bandak AF, Blower TR, Nitiss KC, Shah V, Nitiss JL, Berger JM
Author Correction: An engineered hypercompact CRISPR-Cas12f system with boosted gene-editing activity.
1. Nat Chem Biol - published December 1, 2023
2. Wu T, Liu C, Zou S, Lyu R, Yang B, Yan H, Zhao M, Tang W
Analysis of the molecular determinants for furin cleavage of the spike protein S1/S2 site in defined strains of the prototype coronavirus murine hepatitis virus (MHV).
1. Virus Res - published December 1, 2023
2. Choi A, Kots ED, Singleton DT, Weinstein H, Whittaker GR
Lysinoalanine cross-linking is a conserved post-translational modification in the spirochete flagellar hook.
1. PNAS Nexus - published December 1, 2023
2. Lynch MJ, Deshpande M, Kurniyati K, Zhang K, James M, Miller M, Zhang S, Passalia FJ, Wunder EA Jr, Charon NW, Li C, Crane BR
Serological assays for differentiating natural COVID-19 infection from vaccine induced immunity.
1. J Clin Virol - published December 1, 2023
2. Cheng SMS, Lau JJ, Tsang LCH, Leung K, Lee CK, Hachim A, Kavian N, Chaothai S, Wong RWK, Yu JKM, Chai ZYH, Mori M, Wu C, Yiu K, Hui DSC, Amarasinghe GK, Poon LLM, Wu JT, Valkenburg SA, Peiris M
Essential role of MFSD1-GLMP-GIMAP5 in lymphocyte survival and liver homeostasis.
1. Proc Natl Acad Sci U S A - published December 1, 2023
2. Zhong X, Moresco JJ, Diedrich JK, Pinto AM, SoRelle JA, Wang J, Keller K, Ludwig S, Moresco EMY, Beutler B, Choi JH
An ACE2 decamer viral trap as a durable intervention solution for current and future SARS-CoV.
1. Emerg Microbes Infect - published December 1, 2023
2. Guo H, Cho B, Hinton PR, He S, Yu Y, Ramesh AK, Sivaccumar JP, Ku Z, Campo K, Holland S, Sachdeva S, Mensch C, Dawod M, Whitaker A, Eisenhauer P, Falcone A, Honce R, Botten JW, Carroll SF, Keyt BA, Womack AW, Strohl WR, Xu K, Zhang N, An Z, Ha S, Shiver JW, Fu TM
SARS-COV-2 Omicron variants conformationally escape a rare quaternary antibody binding mode.
1. Commun Biol - published December 1, 2023
2. Goike J, Hsieh CL, Horton AP, Gardner EC, Zhou L, Bartzoka F, Wang N, Javanmardi K, Herbert A, Abbassi S, Xie X, Xia H, Shi PY, Renberg R, Segall-Shapiro TH, Terrace CI, Wu W, Shroff R, Byrom M, Ellington AD, Marcotte EM, Musser JM, Kuchipudi SV, Kapur V, Georgiou G, Weaver SC, Dye JM, Boutz DR, McLellan JS, Gollihar JD
Nearly complete structure of bacteriophage DT57C reveals architecture of head-to-tail interface and lateral tail fibers.
1. Nat Commun - published December 1, 2023
2. Ayala R, Moiseenko AV, Chen TH, Kulikov EE, Golomidova AK, Orekhov PS, Street MA, Sokolova OS, Letarov AV, Wolf M
Chronic metabolic stress drives developmental programs and loss of tissue functions in non-transformed liver that mirror tumor states and stratify survival.
1. bioRxiv - published December 1, 2023
2. Tzouanas CN, Sherman MS, Shay JES, Rubin AJ, Mead BE, Dao TT, Butzlaff T, Mana MD, Kolb KE, Walesky C, Pepe-Mooney BJ, Smith CJ, Prakadan SM, Ramseier ML, Tong EY, Joung J, Chi F, McMahon-Skates T, Winston CL, Jeong WJ, Aney KJ, Chen E, Nissim S, Zhang F, Deshpande V, Lauer GM, Yilmaz ÖH, Goessling W, Shalek AK
A unified Watson-Crick geometry drives transcription of six-letter expanded DNA alphabets by E. coli RNA polymerase.
1. Nat Commun - published December 1, 2023
2. Oh J, Shan Z, Hoshika S, Xu J, Chong J, Benner SA, Lyumkis D, Wang D
Is space the final frontier for mitochondrial study?
1. Biotechniques - published December 1, 2023
2. Neikirk K, Stephens DC, Beasley HK, Marshall AG, Gaddy JA, Damo SM, Hinton A Jr
The assembly of the Mitochondrial Complex I Assembly complex uncovers a redox pathway coordination.
1. Nat Commun - published December 1, 2023
2. McGregor L, Acajjaoui S, Desfosses A, Saïdi M, Bacia-Verloop M, Schwarz JJ, Juyoux P, von Velsen J, Bowler MW, McCarthy AA, Kandiah E, Gutsche I, Soler-Lopez M
Talin and kindlin use integrin tail allostery and direct binding to activate integrins.
1. Nat Struct Mol Biol - published December 1, 2023
2. Aretz J, Aziz M, Strohmeyer N, Sattler M, Fässler R
TCR signaling promotes formation of an STS1-Cbl-b complex with pH-sensitive phosphatase activity that suppresses T cell function in acidic environments.
1. Immunity - published December 1, 2023
2. Tsai YL, Arias-Badia M, Kadlecek TA, Lwin YM, Srinath A, Shah NH, Wang ZE, Barber D, Kuriyan J, Fong L, Weiss A
Stat5 opposes the transcription factor Tox and rewires exhausted CD8(+) T cells toward durable effector-like states during chronic antigen exposure.
1. Immunity - published December 1, 2023
2. Beltra JC, Abdel-Hakeem MS, Manne S, Zhang Z, Huang H, Kurachi M, Su L, Picton L, Ngiow SF, Muroyama Y, Casella V, Huang YJ, Giles JR, Mathew D, Belman J, Klapholz M, Decaluwe H, Huang AC, Berger SL, Garcia KC, Wherry EJ
Screening and Characterization of Allosteric Small Molecules Targeting Bruton's Tyrosine Kinase.
1. Biochemistry - published December 1, 2023
2. Kueffer LE, Lin DY, Amatya N, Serrenho J, Joseph RE, Courtney AH, Andreotti AH
Molecular basis for proofreading by the unique exonuclease domain of Family-D DNA polymerases.
1. Nat Commun - published December 1, 2023
2. Betancurt-Anzola L, Martínez-Carranza M, Delarue M, Zatopek KM, Gardner AF, Sauguet L
Structures, functions, and adaptations of the human LINE-1 ORF2 protein.
1. Nature - published December 1, 2023
2. Baldwin ET, van Eeuwen T, Hoyos D, Zalevsky A, Tchesnokov EP, Sánchez R, Miller BD, Di Stefano LH, Ruiz FX, Hancock M, Işik E, Mendez-Dorantes C, Walpole T, Nichols C, Wan P, Riento K, Halls-Kass R, Augustin M, Lammens A, Jestel A, Upla P, Xibinaku K, Congreve S, Hennink M, Rogala KB, Schneider AM, Fairman JE, Christensen SM, Desrosiers B, Bisacchi GS, Saunders OL, Hafeez N, Miao W, Kapeller R, Zaller DM, Sali A, Weichenrieder O, Burns KH, Götte M, Rout MP, Arnold E, Greenbaum BD, Romero DL, LaCava J, Taylor MS
Mezigdomide is effective alone and in combination with Menin inhibition in pre-clinical models of KMT2A-r and NPM1c AML.
1. Blood - published December 1, 2023
2. Bourgeois W, Cutler JA, Aubrey BJ, Wenge D, Perner F, Martucci C, Henrich JA, Klega K, Nowak RP, Donovan KA, Boileau M, Wen Y, Hatton C, Apazidis AA, Olsen SN, Kirmani N, Pikman Y, Pollard JA, Perry JA, Sperling AS, Ebert BL, McGeehan GM, Crompton BD, Fischer ES, Armstrong SA
Template and target site recognition by human LINE-1 in retrotransposition.
1. Nature - published December 1, 2023
2. Thawani A, Ariza AJF, Nogales E, Collins K
Heteromultimeric sarbecovirus receptor binding domain immunogens primarily generate variant-specific neutralizing antibodies.
1. Proc Natl Acad Sci U S A - published December 1, 2023
2. Zang T, Osei Kuffour E, Baharani VA, Canis M, Schmidt F, Da Silva J, Lercher A, Chaudhary P, Hoffmann HH, Gazumyan A, Miranda IC, MacDonald MR, Rice CM, Nussenzweig MC, Hatziioannou T, Bieniasz PD
Draft genome sequence of Thermococcus waiotapuensis WT1(T), a thermophilic sulfur-dependent archaeon from the order Thermococcales.
1. Microbiol Resour Announc - published December 1, 2023
2. Manners SH, Carere CR, Dhami MK, Dobson RCJ, Stott MB
The inaugural mBio Junior Editorial Board-lessons learned and the path forward toward improving the peer review process.
1. mBio - published December 1, 2023
2. Adinortey CA, Dolan SK, Doore S, Lijek R, Pires DP, Yu W, Draganova EB, Schada von Borzyskowski L
Cryo-EM structure of influenza helical nucleocapsid reveals NP-NP and NP-RNA interactions as a model for the genome encapsidation.
1. Sci Adv - published December 1, 2023
2. Chenavier F, Estrozi LF, Teulon JM, Zarkadas E, Freslon LL, Pellequer JL, Ruigrok RWH, Schoehn G, Ballandras-Colas A, Crépin T
Sumoylation of methionine adenosyltransferase alpha 1 promotes mitochondrial dysfunction in alcohol-associated liver disease.
1. Hepatology - published December 1, 2023
2. Floris A, Chandla S, Lim Y, Barbier-Torres L, Seth K, Khangholi A, Li TWH, Robison A, Murray BJ, Lee S, Michitaka M, Murali R, Tomasi ML, Lu SC
Neuronal-specific TNFAIP1 ablation attenuates postoperative cognitive dysfunction via targeting SNAP25 for K48-linked ubiquitination.
1. Cell Commun Signal - published December 1, 2023
2. Wang W, Gao W, Gong P, Song W, Bu X, Hou J, Zhang L, Zhao B
A deep learning approach to the automatic detection of alignment errors in cryo-electron tomographic reconstructions.
1. J Struct Biol - published December 1, 2023
2. de Isidro-Gómez FP, Vilas JL, Losana P, Carazo JM, Sorzano COS
A single C-terminal residue controls SARS-CoV-2 spike trafficking and incorporation into VLPs.
1. Nat Commun - published December 1, 2023
2. Dey D, Qing E, He Y, Chen Y, Jennings B, Cohn W, Singh S, Gakhar L, Schnicker NJ, Pierce BG, Whitelegge JP, Doray B, Orban J, Gallagher T, Hasan SS
TRAPs: the 'elevator-with-an-operator' mechanism.
1. Trends Biochem Sci - published December 1, 2023
2. Davies JS, Currie MJ, Dobson RCJ, Horne CR, North RA
IraM Remodels the RssB Segmented Helical Linker to Stabilize σ(s) Against Degradation by ClpXP.
1. J Biol Chem - published December 1, 2023
2. Brugger C, Srirangam S, Deaconescu AM
Chemical modulation of cytosolic BAX homodimer potentiates BAX activation and apoptosis.
1. Nat Commun - published December 1, 2023
2. Gitego N, Agianian B, Mak OW, Kumar Mv V, Cheng EH, Gavathiotis E
IDR-targeting compounds suppress HPV genome replication via disruption of phospho-BRD4 association with DNA damage response factors.
1. Mol Cell - published December 1, 2023
2. Wu SY, Lai HT, Sanjib Banerjee N, Ma Z, Santana JF, Wei S, Liu X, Zhang M, Zhan J, Chen H, Posner B, Chen Y, Price DH, Chow LT, Zhou J, Chiang CM
Ligand bound structure of a 6-hydroxynicotinic acid 3-monooxygenase provides mechanistic insights.
1. Arch Biochem Biophys - published December 1, 2023
2. Turlington ZR, Vaz Ferreira de Macedo S, Perry K, Belsky SL, Faust JA, Snider MJ, Hicks KA
Proteolysis-targeting chimeras with reduced off-targets.
1. Nat Chem - published December 1, 2023
2. Nguyen TM, Sreekanth V, Deb A, Kokkonda P, Tiwari PK, Donovan KA, Shoba V, Chaudhary SK, Mercer JAM, Lai S, Sadagopan A, Jan M, Fischer ES, Liu DR, Ebert BL, Choudhary A
Extending the toolbox for RNA biology with SegModTeX: a polymerase-driven method for site-specific and segmental labeling of RNA.
1. Nat Commun - published December 1, 2023
2. Haslecker R, Pham VV, Glänzer D, Kreutz C, Dayie TK, D'Souza VM
Structural and biochemical investigations of a HEAT-repeat protein involved in the cytosolic iron-sulfur cluster assembly pathway.
1. Commun Biol - published December 1, 2023
2. Vasquez S, Marquez MD, Brignole EJ, Vo A, Kong S, Park C, Perlstein DL, Drennan CL
A DARPin promotes faster onset of botulinum neurotoxin A1 action.
1. Nat Commun - published December 1, 2023
2. Leka O, Wu Y, Zanetti G, Furler S, Reinberg T, Marinho J, Schaefer JV, Plückthun A, Li X, Pirazzini M, Kammerer RA
LILRB3 supports immunosuppressive activity of myeloid cells and tumor development.
1. Cancer Immunol Res - published December 1, 2023
2. Huang R, Liu X, Kim J, Deng H, Deng M, Gui X, Chen H, Wu G, Xiong W, Xie J, Lewis C, Homsi J, Yang X, Zhang C, He Y, Lou Q, Smith C, John S, Zhang N, An Z, Zhang C
Autoregulation of the LIM kinases by their PDZ domain.
1. Nat Commun - published December 1, 2023
2. Casanova-Sepúlveda G, Sexton JA, Turk BE, Boggon TJ
Author Correction: A structure of the relict phycobilisome from a thylakoid-free cyanobacterium.
1. Nat Commun - published December 1, 2023
2. Jiang HW, Wu HY, Wang CH, Yang CH, Ko JT, Ho HC, Tsai MD, Bryant DA, Li FW, Ho MC, Ho MY
Research Progress on the Wear Resistance of Key Components in Agricultural Machinery.
1. Materials (Basel) - published December 1, 2023
2. Wang Y, Li D, Nie C, Gong P, Yang J, Hu Z, Li B, Ma M
A pilot study on our non-traditional, varied writing accountability group for historically excluded and underrepresented persons in STEMM.
1. Heliyon - published December 1, 2023
2. Neikirk K, Barongan T, Shao B, Spencer EC, Kabugi K, Conley Z, Vang L, Vue M, Vang N, Garza-Lopez E, Crabtree A, Alexander S, Beasley HK, Marshall AG, Killion M, Stephens D, Owens B, Martinez D, Palavicino-Maggio CB, Jenkins F, Vang C, Morton DJ, Shuler H, Murray SA, Damo S, Vue Z, Hinton A Jr
Antibody targeting of conserved sites of vulnerability on the SARS-CoV-2 spike receptor-binding domain.
1. Structure - published December 1, 2023
2. Sankhala RS, Dussupt V, Chen WH, Bai H, Martinez EJ, Jensen JL, Rees PA, Hajduczki A, Chang WC, Choe M, Yan L, Sterling SL, Swafford I, Kuklis C, Soman S, King J, Corbitt C, Zemil M, Peterson CE, Mendez-Rivera L, Townsley SM, Donofrio GC, Lal KG, Tran U, Green EC, Smith C, de Val N, Laing ED, Broder CC, Currier JR, Gromowski GD, Wieczorek L, Rolland M, Paquin-Proulx D, van Dyk D, Britton Z, Rajan S, Loo YM, McTamney PM, Esser MT, Polonis VR, Michael NL, Krebs SJ, Modjarrad K, Joyce MG
XTX101, a tumor-activated, Fc-enhanced anti-CTLA-4 monoclonal antibody, demonstrates tumor-growth inhibition and tumor-selective pharmacodynamics in mouse models of cancer.
1. J Immunother Cancer - published December 1, 2023
2. Jenkins KA, Park M, Pederzoli-Ribeil M, Eskiocak U, Johnson P, Guzman W, McLaughlin M, Moore-Lai D, O'Toole C, Liu Z, Nicholson B, Flesch V, Qiu H, Clackson T, O'Hagan RC, Rodeck U, Karow M, O'Neil J, Williams JC
Natural history of Ebola virus disease in rhesus monkeys shows viral variant emergence dynamics and tissue-specific host responses.
1. Cell Genom - published December 1, 2023
2. Normandin E, Triana S, Raju SS, Lan TCT, Lagerborg K, Rudy M, Adams GC, DeRuff KC, Logue J, Liu D, Strebinger D, Rao A, Messer KS, Sacks M, Adams RD, Janosko K, Kotliar D, Shah R, Crozier I, Rinn JL, Melé M, Honko AN, Zhang F, Babadi M, Luban J, Bennett RS, Shalek AK, Barkas N, Lin AE, Hensley LE, Sabeti PC, Siddle KJ
Mechanism of Dimer Selectivity and Binding Cooperativity of BRAF inhibitors.
1. bioRxiv - published December 1, 2023
2. Clayton J, Romany A, Matenoglou E, Gavathiotis E, Poulikakos PI, Shen J
3D Mitochondrial Structure in Aging Human Skeletal Muscle: Insights into MFN-2 Mediated Changes.
1. bioRxiv - published December 1, 2023
2. Scudese E, Vue Z, Katti P, Marshall A, Vang L, Garza López E, Neikirk K, Stephens D, Hall DD, Rostami R, Shao JQ, Mungai M, AshShareef ST, Hicsasmaz I, Manus S, Wanjalla C, Whiteside A, Williams C, Damo SM, Gaddy JA, Kirabo A, Glancy B, Dantas EHM, Kinder A, Scartoni F, Baffi M, McReynolds MR, Phillips MA, Cooper A, Murray SA, Exil V, Mobley BC, Hinton A
Host E3 ubiquitin ligase ITCH mediates Toxoplasma gondii effector GRA35-triggered NLRP1 inflammasome activation and cell-autonomous immunity.
1. bioRxiv - published December 1, 2023
2. Wang Y, Hollingsworth LR, Sangaré LO, Paredes-Santos TC, Krishnamurthy S, Penn BH, Wu H, Saeij JPJ
Structure of an insect gustatory receptor.
1. bioRxiv - published December 1, 2023
2. Frank HM, Walujkar S, Walsh RM Jr, Laursen WJ, Theobald DL, Garrity PA, Gaudet R
Broadly neutralizing antibody induction by non-stabilized SARS-CoV-2 Spike mRNA vaccination in nonhuman primates.
1. bioRxiv - published December 1, 2023
2. Malewana RD, Stalls V, May A, Lu X, Martinez DR, Schäfer A, Li D, Barr M, Sutherland LL, Lee E, Parks R, Beck WE, Newman A, Bock KW, Minai M, Nagata BM, DeMarco CT, Denny TN, Oguin TH 3rd, Rountree W, Wang Y, Mansouri K, Edwards RJ, Sempowski GD, Eaton A, Muramatsu H, Henderson R, Tam Y, Barbosa C, Tang J, Cain DW, Santra S, Moore IN, Andersen H, Lewis MG, Golding H, Seder R, Khurana S, Montefiori DC, Pardi N, Weissman D, Baric RS, Acharya P, Haynes BF, Saunders KO
A new GUV-based assay to reconstitute membrane tethering in vitro demonstrates the vesicle tethering ability of the selective autophagy scaffold Atg11.
1. bioRxiv - published December 1, 2023
2. Andhare D, Ragusa MJ