IBBR Publications

Found 258 results
Filters: Keyword is Binding Sites  [Clear All Filters]
2005
Teplyakov A, Liu S, Lu Z, Howard A, Dunaway-Mariano D, Herzberg O. Crystal structure of the petal death protein from carnation flower. Biochemistry. 2005 ;44(50):16377-84.
Moult J. A decade of CASP: progress, bottlenecks and prognosis in protein structure prediction. Curr Opin Struct Biol. 2005 ;15(3):285-9.
Alexander PA, Rozak DA, Orban J, Bryan PN. Directed evolution of highly homologous proteins with different folds by phage display: implications for the protein folding code. Biochemistry. 2005 ;44(43):14045-54.
Rozak DA, Orban J, Bryan PN. G148-GA3: a streptococcal virulence module with atypical thermodynamics of folding optimally binds human serum albumin at physiological temperatures. Biochim Biophys Acta. 2005 ;1753(2):226-33.
Hancock CN, Macias A, Lee EKyoung, Yu SYeon, Mackerell AD, Shapiro P. Identification of novel extracellular signal-regulated kinase docking domain inhibitors. J Med Chem. 2005 ;48(14):4586-95.
Pierce BG, Tong W, Weng Z. M-ZDOCK: a grid-based approach for Cn symmetric multimer docking. Bioinformatics. 2005 ;21(8):1472-8.
He Y, Yeh DCheon, Alexander P, Bryan PN, Orban J. Solution NMR structures of IgG binding domains with artificially evolved high levels of sequence identity but different folds. Biochemistry. 2005 ;44(43):14055-61.
Wilder PT, Varney KM, Weiss MB, Gitti RK, Weber DJ. Solution structure of zinc- and calcium-bound rat S100B as determined by nuclear magnetic resonance spectroscopy. Biochemistry. 2005 ;44(15):5690-702.
Deng L, Velikovsky CA, Swaminathan CP, Cho S, Mariuzza RA. Structural basis for recognition of the T cell adaptor protein SLP-76 by the SH3 domain of phospholipase Cgamma1. J Mol Biol. 2005 ;352(1):1-10.
Lehmann C, Pullalarevu S, Krajewski W, Willis MA, Galkin A, Howard A, Herzberg O. Structure of HI0073 from Haemophilus influenzae, the nucleotide-binding domain of a two-protein nucleotidyl transferase. Proteins. 2005 ;60(4):807-11.
Wiehe K, Pierce BG, Mintseris J, Tong WWei, Anderson R, Chen R, Weng Z. ZDOCK and RDOCK performance in CAPRI rounds 3, 4, and 5. Proteins. 2005 ;60(2):207-13.
2004
Tao Y, Fishman A, Bentley WE, Wood TK. Altering toluene 4-monooxygenase by active-site engineering for the synthesis of 3-methoxycatechol, methoxyhydroquinone, and methylhydroquinone. J Bacteriol. 2004 ;186(14):4705-13.
Horton JR, Ratner G, Banavali NK, Huang N, Choi Y, Maier MA, Marquez VE, Mackerell AD, Cheng X. Caught in the act: visualization of an intermediate in the DNA base-flipping pathway induced by HhaI methyltransferase. Nucleic Acids Res. 2004 ;32(13):3877-86.
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.
Guan R, Malchiodi EL, Wang Q, Schuck P, Mariuzza RA. Crystal structure of the C-terminal peptidoglycan-binding domain of human peptidoglycan recognition protein Ialpha. J Biol Chem. 2004 ;279(30):31873-82.
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.
Markowitz J, Chen I, Gitti R, Baldisseri DM, Pan Y, Udan R, Carrier F, Mackerell AD, Weber DJ. Identification and characterization of small molecule inhibitors of the calcium-dependent S100B-p53 tumor suppressor interaction. J Med Chem. 2004 ;47(21):5085-93.
Huang N, Nagarsekar A, Xia G, Hayashi J, Mackerell AD. Identification of non-phosphate-containing small molecular weight inhibitors of the tyrosine kinase p56 Lck SH2 domain via in silico screening against the pY + 3 binding site. J Med Chem. 2004 ;47(14):3502-11.
Lin J, Yang Q, Yan Z, Markowitz J, Wilder PT, Carrier F, Weber DJ. Inhibiting S100B restores p53 levels in primary malignant melanoma cancer cells. J Biol Chem. 2004 ;279(32):34071-7.
Bradrick TD, Marino JP. Ligand-induced changes in 2-aminopurine fluorescence as a probe for small molecule binding to HIV-1 TAR RNA. RNA. 2004 ;10(9):1459-68.
D Gallagher T, Chinchilla D, Lau H, Eisenstein E. Local and global control mechanisms in allosteric threonine deaminase. Methods Enzymol. 2004 ;380:85-106.
DeWeese-Scott C, Moult J. Molecular modeling of protein function regions. Proteins. 2004 ;55(4):942-61.
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.
Lim K, Sarikaya E, Galkin A, Krajewski W, Pullalarevu S, Shin J-H, Kelman Z, Howard A, Herzberg O. Novel structure and nucleotide binding properties of HI1480 from Haemophilus influenzae: a protein with no known sequence homologues. Proteins. 2004 ;56(3):564-71.
Ladner JE, Parsons JF, Rife CL, Gilliland GL, Armstrong RN. Parallel evolutionary pathways for glutathione transferases: structure and mechanism of the mitochondrial class kappa enzyme rGSTK1-1. Biochemistry. 2004 ;43(2):352-61.