Yi Sheng, Ph.D. - Related publications

2004 University of Toronto, Toronto, ON, Canada 
Molecular Biology, Biochemistry
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50 most relevant papers in past 60 days:
Year Citation  Score
2019 Müller AU, Leibundgut M, Ban N, Weber-Ban E. Structure and functional implications of WYL domain-containing bacterial DNA damage response regulator PafBC. Nature Communications. 10: 4653. PMID 31604936 DOI: 10.1038/s41467-019-12567-x   
2019 Sun B, Vaughan DM, Tikunova SB, Creamer TP, Davis JP, Kekenes-Huskey PM. Calmodulin/Calcineurin Interaction Beyond the Calmodulin-binding Region Contributes to Calcineurin Activation. Biochemistry. PMID 31483613 DOI: 10.1021/acs.biochem.9b00626   
2019 Chandravanshi M, Gogoi P, Kanaujia SP. Structural and thermodynamic correlation illuminates the selective transport mechanism of disaccharide α-glycosides through ABC transporter. The Febs Journal. PMID 31608555 DOI: 10.1111/febs.15093   
2019 Montefiori M, Pilotto S, Marabelli C, Moroni E, Ferraro M, Serapian SA, Mattevi A, Colombo G. Impact of Mutations on NPAC Structural Dynamics: Mechanistic Insights from MD Simulations. Journal of Chemical Information and Modeling. PMID 31408337 DOI: 10.1021/acs.jcim.9b00588   
2019 Bonin JP, Sapienza PJ, Wilkerson E, Goldfarb D, Wang L, Herring L, Chen X, Major MB, Lee AL. Positive Cooperativity in Substrate Binding by Human Thymidylate Synthase. Biophysical Journal. PMID 31500803 DOI: 10.1016/j.bpj.2019.08.015   
2019 Neißner K, Keller H, Duchardt-Ferner E, Hacker C, Kruse K, Averhoff B, Wöhnert J. NMR resonance assignments for the GSPII-B domain of the traffic ATPase PilF from Thermus thermophilus in the apo and the c-di-GMP-bound state. Biomolecular Nmr Assignments. PMID 31432400 DOI: 10.1007/s12104-019-09911-z   
2019 Samad A, Li Y, Zhang C, Chen F, Zeng W, Fan X, Jin T. X-ray crystal structure of putative transcription regulator lmo2088 from Listeria monocytogenes. Biochemical and Biophysical Research Communications. PMID 31607473 DOI: 10.1016/j.bbrc.2019.10.033   
2019 Nosrati M, Dey D, Mehrani A, Strassler SE, Zelinskaya N, Hoffer ED, Stagg SM, Dunham CM, Conn GL. Functionally critical residues in the aminoglycoside resistance-associated methyltransferase RmtC play distinct roles in 30S substrate recognition. The Journal of Biological Chemistry. PMID 31594862 DOI: 10.1074/jbc.RA119.011181   
2019 Gao M, Yang J, Liu S, Su Z, Huang Y. Intrinsically Disordered Transactivation Domains Bind to TAZ1 Domain of CBP via Diverse Mechanisms. Biophysical Journal. PMID 31521329 DOI: 10.1016/j.bpj.2019.08.026   
2019 Liu X, Hu Q, Yang J, Huang S, Wei T, Chen W, He Y, Wang D, Liu Z, Wang K, Gan J, Chen H. Selective cadmium regulation mediated by a cooperative binding mechanism in CadR. Proceedings of the National Academy of Sciences of the United States of America. PMID 31548408 DOI: 10.1073/pnas.1908610116   
2019 Krishnan B, Srivastava SS, Sankeshi V, Garg R, Srivastava S, Sankaranarayanan R, Sharma Y. βγ-Crystallination endows a novel bacterial glycoside hydrolase 64 with Ca-dependent activity modulation. Journal of Bacteriology. PMID 31527113 DOI: 10.1128/JB.00392-19   
2019 Li J, Yu F, Guo H, Xiong R, Zhang W, He F, Zhang M, Zhang P. Crystal structure of plant PLDα1 reveals catalytic and regulatory mechanisms of eukaryotic phospholipase D. Cell Research. PMID 31619765 DOI: 10.1038/s41422-019-0244-6   
2019 Slavata L, Chmelík J, Kavan D, Filandrová R, Fiala J, Rosůlek M, Mrázek H, Kukačka Z, Vališ K, Man P, Miller M, McIntyre W, Fabris D, Novák P. MS-Based Approaches Enable the Structural Characterization of Transcription Factor/DNA Response Element Complex. Biomolecules. 9. PMID 31561554 DOI: 10.3390/biom9100535   
2019 Fenwick MK, Dong M, Lin H, Ealick SE. Crystal structure of Dph2 in complex with elongation factor 2 reveals structural basis for first step of diphthamide biosynthesis. Biochemistry. PMID 31566354 DOI: 10.1021/acs.biochem.9b00718   
2019 Throckmorton K, Vinnik V, Chawdhury R, Cook T, Chevrette MG, Maranas C, Pfleger B, Thomas MG. Directed Evolution Reveals the Functional Sequence Space of an Adenylation Domain Specificity Code. Acs Chemical Biology. PMID 31430120 DOI: 10.1021/acschembio.9b00532   
2019 Huang YH, Ning ZJ, Huang CY. Crystal structure of dihydropyrimidinase in complex with anticancer drug 5-fluorouracil. Biochemical and Biophysical Research Communications. PMID 31481233 DOI: 10.1016/j.bbrc.2019.08.153   
2019 Mikula KM, Kolodziejczyk R, Goldman A. Structure of the UspA1 protein fragment from Moraxella catarrhalis responsible for C3d binding. Journal of Structural Biology. PMID 31400508 DOI: 10.1016/j.jsb.2019.08.002   
2019 Wang N, Bao H, Chen L, Liu Y, Li Y, Wu B, Huang H. Molecular basis of abasic site sensing in single-stranded DNA by the SRAP domain of E. coli yedK. Nucleic Acids Research. PMID 31504793 DOI: 10.1093/nar/gkz744   
2019 Hao Y, England JP, Bellucci L, Paci E, Hodges HC, Taylor SS, Maillard RA. Activation of PKA via asymmetric allosteric coupling of structurally conserved cyclic nucleotide binding domains. Nature Communications. 10: 3984. PMID 31484930 DOI: 10.1038/s41467-019-11930-2   
2019 Ndi M, Masuyer G, Dawitz H, Carlström A, Michel M, Elofsson A, Rapp M, Stenmark P, Ott M. Structural basis for the interaction of the chaperone Cbp3 with newly synthesized cytochrome during mitochondrial respiratory chain assembly. The Journal of Biological Chemistry. PMID 31537648 DOI: 10.1074/jbc.RA119.010483   
2019 Jégouzo SAF, Feinberg H, Morrison A, Holder A, May A, Huang Z, Jiang L, Lasanajak Y, Smith DF, Werling D, Drickamer K, Weis WI, Taylor ME. CD23 is a glycan-binding receptor in some mammalian species. The Journal of Biological Chemistry. PMID 31488546 DOI: 10.1074/jbc.RA119.010572   
2019 Psenakova K, Kohoutova K, Obsilova V, Ausserlechner MJ, Veverka V, Obsil T. Forkhead Domains of FOXO Transcription Factors Differ in both Overall Conformation and Dynamics. Cells. 8. PMID 31450545 DOI: 10.3390/cells8090966   
2019 Nyamboya RA, Sutton BJ, Calvert RA. Mapping of the binding site for FcμR in human IgM-Fc. Biochimica Et Biophysica Acta. Proteins and Proteomics. 140266. PMID 31449905 DOI: 10.1016/j.bbapap.2019.140266   
2019 Zouharova M, Herman P, Hofbauerová K, Vondrasek J, Bousova K. TRPM6 N-Terminal CaM- and S100A1-Binding Domains. International Journal of Molecular Sciences. 20. PMID 31505788 DOI: 10.3390/ijms20184430   
2019 Abrusán G, Marsh JA. Ligand-Binding-Site Structure Shapes Allosteric Signal Transduction and the Evolution of Allostery in Protein Complexes. Molecular Biology and Evolution. 36: 1711-1727. PMID 31004156 DOI: 10.1093/molbev/msz093   
2019 Valgardson J, Cosbey R, Houser P, Rupp M, Van Bronkhorst R, Lee M, Jagodzinski F, Amacher JF. MotifAnalyzer-PDZ: A computational program to investigate the evolution of PDZ-binding target specificity. Protein Science : a Publication of the Protein Society. PMID 31599029 DOI: 10.1002/pro.3741   
2019 Kusunoki H, Tanaka T, Kohno T, Kimura H, Hosoda K, Wakamatsu K, Hamaguchi I. NMR characterization of the interaction between Bcl-x and the BH3-like motif of hepatitis B virus X protein. Biochemical and Biophysical Research Communications. PMID 31439373 DOI: 10.1016/j.bbrc.2019.08.036   
2019 Mehta N, Maddineni S, Mathews II, Andres Parra Sperberg R, Huang PS, Cochran JR. Structure and Functional Binding Epitope of V-domain Ig Suppressor of T Cell Activation. Cell Reports. 28: 2509-2516.e5. PMID 31484064 DOI: 10.1016/j.celrep.2019.07.073   
2019 Yeom G, Kim J, Park CJ. Investigation of the core binding regions of human Werner syndrome and Fanconi anemia group J helicases on replication protein A. Scientific Reports. 9: 14016. PMID 31570747 DOI: 10.1038/s41598-019-50502-8   
2019 Ghanbarpour A, Pinger C, Esmatpour Salmani R, Assar Z, Santos EM, Nosrati M, Pawlowski K, Spence D, Vasileiou C, Jin X, Borhan B, Geiger JH. Engineering the hCRBPII domain-swapped dimer into a new class of protein switches. Journal of the American Chemical Society. PMID 31557439 DOI: 10.1021/jacs.9b04664   
2019 Kohl B, Granitzka V, Singh A, Quintas P, Xiromeriti E, Mörtel F, Wright PE, Kroon G, Dyson HJ, Stoll R. Comparison of backbone dynamics of the p50 dimerization domain of NFκB in the homodimeric transcription factor NFκB1 and in its heterodimeric complex with RelA (p65). Protein Science : a Publication of the Protein Society. PMID 31587407 DOI: 10.1002/pro.3736   
2019 Huck JD, Que NLS, Immormino RM, Shrestha L, Taldone T, Chiosis G, Gewirth DT. NECA derivatives exploit the paralog-specific properties of the Site 3 side pocket of Grp94, the ER Hsp90. The Journal of Biological Chemistry. PMID 31501246 DOI: 10.1074/jbc.RA119.009960   
2019 Patel KD, d'Andrea FB, Gaudelli NM, Buller AR, Townsend CA, Gulick AM. Structure of a bound peptide phosphonate reveals the mechanism of nocardicin bifunctional thioesterase epimerase-hydrolase half-reactions. Nature Communications. 10: 3868. PMID 31455765 DOI: 10.1038/s41467-019-11740-6   
2019 Kotter A, Mootz HD, Heuer A. Standard binding free energy of a SIM SUMO complex. Journal of Chemical Theory and Computation. PMID 31525924 DOI: 10.1021/acs.jctc.9b00428   
2019 Perera LA, Rato C, Yan Y, Neidhardt L, McLaughlin SH, Read RJ, Preissler S, Ron D. An oligomeric state-dependent switch in the ER enzyme FICD regulates AMPylation and deAMPylation of BiP. The Embo Journal. e102177. PMID 31531998 DOI: 10.15252/embj.2019102177   
2019 Srivastava S, Mehta P, Sharma O, Sharma M, Malik R. Computationally guided identification of Akt-3, a serine/threonine kinase inhibitors: Insights from homology modelling, structure-based screening, molecular dynamics and quantum mechanical calculations. Journal of Biomolecular Structure & Dynamics. 1-11. PMID 31590614 DOI: 10.1080/07391102.2019.1675536   
2019 Naveenkumar N, Sowdhamini R, Srinivasan N. Specialized structural and functional roles of residues selectively conserved in subfamilies of the pleckstrin homology domain family. Febs Open Bio. PMID 31436855 DOI: 10.1002/2211-5463.12725   
2019 Gates SN, Martin A. Stairway to Translocation: AAA+ motor structures reveal the mechanisms of ATP-dependent substrate translocation. Protein Science : a Publication of the Protein Society. PMID 31599052 DOI: 10.1002/pro.3743   
2019 Liu JH, Yang JY, Hsu DW, Lai YH, Li YP, Tsai YR, Hou MH. Crystal Structure-Based Exploration of Arginine-Containing Peptide Binding in the ADP-Ribosyltransferase Domain of the Type III Effector XopAI Protein. International Journal of Molecular Sciences. 20. PMID 31615004 DOI: 10.3390/ijms20205085   
2019 Naushad SM, Rama Devi AR, Hussain T, Alrokayan SA, Janaki Ramaiah M, Kutala VK. analysis of the structural and functional implications of R27H polymorphism. Journal of Genetics. 98. PMID 31544789   
2019 Wahl LC, Watt JE, Yim HTT, De Bourcier D, Tolchard J, Soond SM, Blumenschein TMA, Chantry A. Smad7 Binds Differently to Individual and Tandem WW3 and WW4 Domains of WWP2 Ubiquitin Ligase Isoforms. International Journal of Molecular Sciences. 20. PMID 31546607 DOI: 10.3390/ijms20194682   
2019 Steele JFC, Hughes RK, Banfield MJ. Structural and biochemical studies of an NB-ARC domain from a plant NLR immune receptor. Plos One. 14: e0221226. PMID 31461469 DOI: 10.1371/journal.pone.0221226   
2019 Ouyang Z, Zheng F, Chew JY, Pei Y, Zhou J, Wen K, Han M, Lemieux MJ, Hwang PM, Wen Y. Deciphering the activation and recognition mechanisms of Staphylococcus aureus response regulator ArlR. Nucleic Acids Research. PMID 31598698 DOI: 10.1093/nar/gkz891   
2019 Tomé CS, Lopes RR, Sousa PMF, Amaro MP, Leandro J, Mertens HDT, Leandro P, Vicente JB. Structure of full-length wild-type human phenylalanine hydroxylase by small angle X-ray scattering reveals substrate-induced conformational stability. Scientific Reports. 9: 13615. PMID 31541188 DOI: 10.1038/s41598-019-49944-x   
2019 Langella E, Alterio V, D'Ambrosio K, Cadoni R, Winum JY, Supuran CT, Monti SM, De Simone G, Di Fiore A. Exploring benzoxaborole derivatives as carbonic anhydrase inhibitors: a structural and computational analysis reveals their conformational variability as a tool to increase enzyme selectivity. Journal of Enzyme Inhibition and Medicinal Chemistry. 34: 1498-1505. PMID 31423863 DOI: 10.1080/14756366.2019.1653291   
2019 Gupta A, Pillai VS, Kant Chittela R. Role of amino acid residues important for nucleic acid binding in human Translin. The International Journal of Biochemistry & Cell Biology. 105593. PMID 31442605 DOI: 10.1016/j.biocel.2019.105593   
2019 Kim M, Park SH, Park JS, Kim HJ, Han BW. Crystal Structure of Human EOLA1 Implies Its Possibility of RNA Binding. Molecules (Basel, Switzerland). 24. PMID 31569543 DOI: 10.3390/molecules24193529   
2019 Manne K, Narayana SVL, Chattopadhyay D. Crystal structure of the N-terminal domain of the fibronectin-binding protein PavA from Streptococcus pneumoniae. Acta Crystallographica. Section F, Structural Biology Communications. 75: 657-662. PMID 31584015 DOI: 10.1107/S2053230X19012160   
2019 Jones R, Lessoued S, Meier K, Devignot S, Barata-García S, Mate M, Bragagnolo G, Weber F, Rosenthal M, Reguera J. Structure and function of the Toscana virus cap-snatching endonuclease. Nucleic Acids Research. PMID 31584100 DOI: 10.1093/nar/gkz838   
2019 Permyakov SE, Vologzhannikova AS, Nemashkalova EL, Kazakov AS, Denesyuk AI, Denessiouk K, Baksheeva VE, Zamyatnin AA Jr, Zernii EY, Uversky VN, Permyakov EA. Experimental Insight into the Structural and Functional Roles of the 'Black' and 'Gray' Clusters in Recoverin, a Calcium Binding Protein with Four EF-Hand Motifs. Molecules. 24: E2494. PMID 31288444 DOI: 10.3390/molecules24132494