Progressive dry-core-wet-rim hydration trend in a nested-ring topology of protein binding interfaces
暂无分享,去创建一个
Zhenhua Li | Jinyan Li | Ying He | Limsoon Wong | Jinyan Li | L. Wong | Zhenhua Li | Ying He
[1] K. Henrick,et al. Inference of macromolecular assemblies from crystalline state. , 2007, Journal of molecular biology.
[2] T. Smyth,et al. Substrate variants versus transition state analogues as noncovalent reversible enzyme inhibitors. , 2004, Bioorganic & medicinal chemistry.
[3] W. C. Still,et al. Semianalytical treatment of solvation for molecular mechanics and dynamics , 1990 .
[4] M. Nakasako. Water-protein interactions from high-resolution protein crystallography. , 2004, Philosophical transactions of the Royal Society of London. Series B, Biological sciences.
[5] Wei He,et al. Structural determinants for regulation of phosphodiesterase by a G protein at 2.0 Å , 2001, Nature.
[6] Hongbo Zhu,et al. NOXclass: prediction of protein-protein interaction types , 2006, BMC Bioinformatics.
[7] J. Janin,et al. Dissecting protein–protein recognition sites , 2002, Proteins.
[8] R. Nussinov,et al. Hot regions in protein--protein interactions: the organization and contribution of structurally conserved hot spot residues. , 2005, Journal of molecular biology.
[9] B. Rost,et al. Analysing six types of protein-protein interfaces. , 2003, Journal of molecular biology.
[10] L. Serrano,et al. Predicting changes in the stability of proteins and protein complexes: a study of more than 1000 mutations. , 2002, Journal of molecular biology.
[11] S. Vajda,et al. Anchor residues in protein-protein interactions. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[12] O. Carugo,et al. How many water molecules can be detected by protein crystallography? , 1999, Acta crystallographica. Section D, Biological crystallography.
[13] Jinyan Li,et al. Geometrically centered region: A “wet” model of protein binding hot spots not excluding water molecules , 2010, Proteins.
[14] R. Nussinov,et al. Protein–protein interactions: Structurally conserved residues distinguish between binding sites and exposed protein surfaces , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[15] Nobutoshi Ito,et al. Water-mediated interaction at a protein-protein interface , 2004 .
[16] Z. Weng,et al. Atomic contact vectors in protein‐protein recognition , 2003, Proteins.
[17] BMC Bioinformatics , 2005 .
[18] J. Janin,et al. A dissection of specific and non-specific protein-protein interfaces. , 2004, Journal of molecular biology.
[19] S. Anderson,et al. Alanine Point-Mutations in the Reactive Region of Bovine Pancreatic Trypsin Inhibitor: Effects on the Kinetics and Thermodynamics of Binding to β-Trypsin and α-Chymotrypsin† , 1996 .
[20] T. Clackson,et al. A hot spot of binding energy in a hormone-receptor interface , 1995, Science.
[21] J. Thornton,et al. Discriminating between homodimeric and monomeric proteins in the crystalline state , 2000, Proteins.
[22] Z. Weng,et al. Structure, function, and evolution of transient and obligate protein-protein interactions. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[23] Joan Teyra,et al. Characterization of interfacial solvent in protein complexes and contribution of wet spots to the interface description , 2007, Proteins.
[24] A. Wada,et al. A theoretical study of the dielectric constant of protein. , 1988, Protein engineering.
[25] Joan Teyra,et al. A molecular dynamics approach to study the importance of solvent in protein interactions , 2008, Proteins.
[26] J. Thornton,et al. PQS: a protein quaternary structure file server. , 1998, Trends in biochemical sciences.
[27] Pinak Chakrabarti,et al. Hydration of protein–protein interfaces , 2005, Proteins.
[28] Ozlem Keskin,et al. Similar binding sites and different partners: implications to shared proteins in cellular pathways. , 2007, Structure.
[29] Martin Chaplin,et al. Do we underestimate the importance of water in cell biology? , 2006, Nature Reviews Molecular Cell Biology.
[30] N. Sinha,et al. Differences in electrostatic properties at antibody-antigen binding sites: implications for specificity and cross-reactivity. , 2002, Biophysical journal.
[31] Gideon Schreiber,et al. On the contribution of water-mediated interactions to protein-complex stability. , 2008, Biochemistry.
[32] Miguel Costas,et al. Structural Basis of Human Triosephosphate Isomerase Deficiency , 2008, Journal of Biological Chemistry.
[33] R. Nussinov,et al. Hydrogen bonds and salt bridges across protein-protein interfaces. , 1997, Protein engineering.
[34] Sarah A. Teichmann,et al. Principles of protein-protein interactions , 2002, ECCB.
[35] Ruben Abagyan,et al. Statistical analysis and prediction of protein–protein interfaces , 2005, Proteins.
[36] A. Bogan,et al. Anatomy of hot spots in protein interfaces. , 1998, Journal of molecular biology.
[37] E. Goldman,et al. A mutational analysis of the binding of two different proteins to the same antibody. , 1996, Biochemistry.
[38] D. Goldenberg,et al. Structure of a serine protease poised to resynthesize a peptide bond , 2009, Proceedings of the National Academy of Sciences.
[39] T. N. Bhat,et al. The Protein Data Bank , 2000, Nucleic Acids Res..
[40] J. Onuchic,et al. Protein folding mediated by solvation: Water expulsion and formation of the hydrophobic core occur after the structural collapse , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[41] H. B. Mann,et al. On a Test of Whether one of Two Random Variables is Stochastically Larger than the Other , 1947 .
[42] G A Petsko,et al. Subunit interface of triosephosphate isomerase: site-directed mutagenesis and characterization of the altered enzyme. , 1987, Biochemistry.
[43] Judit Ovádi,et al. Triosephosphate isomerase deficiency: Facts and doubts , 2006, IUBMB life.
[44] J. Thornton,et al. Satisfying hydrogen bonding potential in proteins. , 1994, Journal of molecular biology.
[45] Alexandre M. J. J. Bonvin,et al. Solvated docking: introducing water into the modelling of biomolecular complexes , 2006, Bioinform..
[46] Igor A. Gariev,et al. Hierarchical classification of hydrolases catalytic sites , 2006, Bioinform..
[47] T. Bhat,et al. Bound water molecules and conformational stabilization help mediate an antigen-antibody association. , 1994, Proceedings of the National Academy of Sciences of the United States of America.
[48] M. Uematsu,et al. Static Dielectric Constant of Water and Steam , 1980 .
[49] S. Anderson,et al. Alanine point-mutations in the reactive region of bovine pancreatic trypsin inhibitor: effects on the kinetics and thermodynamics of binding to beta-trypsin and alpha-chymotrypsin. , 1996, Biochemistry.
[50] J. Onuchic,et al. Water mediation in protein folding and molecular recognition. , 2006, Annual review of biophysics and biomolecular structure.
[51] Gabriele Ausiello,et al. MINT: the Molecular INTeraction database , 2006, Nucleic Acids Res..