IBBR Publications

Found 365 results
Filters: Keyword is Protein Conformation  [Clear All Filters]
Liu S, Lu Z, Han Y, Jia Y, Howard A, Dunaway-Mariano D, Herzberg O. Conformational flexibility of PEP mutase. Biochemistry. 2004 ;43(15):4447-53.
Gulbis JM, Kazmirski SL, Finkelstein J, Kelman Z, O'Donnell M, Kuriyan J. Crystal structure of the chi:psi sub-assembly of the Escherichia coli DNA polymerase clamp-loader complex. Eur J Biochem. 2004 ;271(2):439-49.
Mackerell AD, Feig M, Brooks CL. Extending the treatment of backbone energetics in protein force fields: limitations of gas-phase quantum mechanics in reproducing protein conformational distributions in molecular dynamics simulations. J Comput Chem. 2004 ;25(11):1400-15.
Walsh STR, Sylvester JE, Kossiakoff AA. The high- and low-affinity receptor binding sites of growth hormone are allosterically coupled. Proc Natl Acad Sci U S A. 2004 ;101(49):17078-83.
Mackerell AD, Feig M, Brooks CL. Improved treatment of the protein backbone in empirical force fields. J Am Chem Soc. 2004 ;126(3):698-9.
Wymore T, Hempel J, Cho SS, Mackerell AD, Nicholas HB, Deerfield DW. Molecular recognition of aldehydes by aldehyde dehydrogenase and mechanism of nucleophile activation. Proteins. 2004 ;57(4):758-71.
Fishman A, Tao Y, Bentley WE, Wood TK. Protein engineering of toluene 4-monooxygenase of Pseudomonas mendocina KR1 for synthesizing 4-nitrocatechol from nitrobenzene. Biotechnol Bioeng. 2004 ;87(6):779-90.
Cho S, Velikovsky CA, Swaminathan CP, Houtman JCD, Samelson LE, Mariuzza RA. Structural basis for differential recognition of tyrosine-phosphorylated sites in the linker for activation of T cells (LAT) by the adaptor Gads. EMBO J. 2004 ;23(7):1441-51.
Parsons L, Orban J. Structural genomics and the metabolome: combining computational and NMR methods to identify target ligands. Curr Opin Drug Discov Devel. 2004 ;7(1):62-8.
Dimasi N, Moretta A, Moretta L, Biassoni R, Mariuzza RA. Structure of the saccharide-binding domain of the human natural killer cell inhibitory receptor p75/AIRM1. Acta Crystallogr D Biol Crystallogr. 2004 ;60(Pt 2):401-3.
Lehmann C, Doseeva V, Pullalarevu S, Krajewski W, Howard A, Herzberg O. YbdK is a carboxylate-amine ligase with a gamma-glutamyl:Cysteine ligase activity: crystal structure and enzymatic assays. Proteins. 2004 ;56(2):376-83.
Venclovas C, Zemla A, Fidelis K, Moult J. Assessment of progress over the CASP experiments. Proteins. 2003 ;53 Suppl 6:585-95.
Janin J, Henrick K, Moult J, Eyck LTen, Sternberg MJE, Vajda S, Vakser I, Wodak SJ. CAPRI: a Critical Assessment of PRedicted Interactions. Proteins. 2003 ;52(1):2-9.
Lim K, Tempczyk A, Bonander N, Toedt J, Howard A, Eisenstein E, Herzberg O. A catalytic mechanism for D-Tyr-tRNATyr deacylase based on the crystal structure of Hemophilus influenzae HI0670. J Biol Chem. 2003 ;278(15):13496-502.
Moult J, Fidelis K, Zemla A, Hubbard T. Critical assessment of methods of protein structure prediction (CASP)-round V. Proteins. 2003 ;53 Suppl 6:334-9.
Teplyakov A, Obmolova G, Chu SY, Toedt J, Eisenstein E, Howard AJ, Gilliland GL. Crystal structure of the YchF protein reveals binding sites for GTP and nucleic acid. J Bacteriol. 2003 ;185(14):4031-7.
Lim K, Tempczyk A, Parsons JF, Bonander N, Toedt J, Kelman Z, Howard A, Eisenstein E, Herzberg O. Crystal structure of YbaB from Haemophilus influenzae (HI0442), a protein of unknown function coexpressed with the recombinational DNA repair protein RecR. Proteins. 2003 ;50(2):375-9.
Li Y, Urrutia M, Smith-Gill SJ, Mariuzza RA. Dissection of binding interactions in the complex between the anti-lysozyme antibody HyHEL-63 and its antigen. Biochemistry. 2003 ;42(1):11-22.
Majeed S, Ofek GA, Belachew A, Huang C-chin, Zhou T, Kwong PD. Enhancing protein crystallization through precipitant synergy. Structure. 2003 ;11(9):1061-70.
Ulmer TS, Ramirez BE, Delaglio F, Bax A. Evaluation of backbone proton positions and dynamics in a small protein by liquid crystal NMR spectroscopy. J Am Chem Soc. 2003 ;125(30):9179-91.
Melamud E, Moult J. Evaluation of disorder predictions in CASP5. Proteins. 2003 ;53 Suppl 6:561-5.
Brabazon DM, Abdulaev NG, Ridge KD. Evidence for structural changes in carboxyl-terminal peptides of transducin alpha-subunit upon binding a soluble mimic of light-activated rhodopsin. Biochemistry. 2003 ;42(2):302-11.
Zavala-Ruiz Z, Sundberg EJ, Stone JD, DeOliveira DB, Chan IC, Svendsen J, Mariuzza RA, Stern LJ. Exploration of the P6/P7 region of the peptide-binding site of the human class II major histocompatability complex protein HLA-DR1. J Biol Chem. 2003 ;278(45):44904-12.