Comparative modelling by restraint-based conformational sampling
暂无分享,去创建一个
Nicholas Furnham | Swanand Gore | Tom L Blundell | T. Blundell | P. D. de Bakker | D. Burke | Nicholas Furnham | S. Gore | Paul IW de Bakker | David F Burke
[1] T. Blundell,et al. Comparative protein modelling by satisfaction of spatial restraints. , 1993, Journal of molecular biology.
[2] Marvin Edelman,et al. The limit of accuracy of protein modeling: influence of crystal packing on protein structure. , 2005, Journal of molecular biology.
[3] Ceslovas Venclovas,et al. Progress over the first decade of CASP experiments , 2005, Proteins.
[4] R. Huber,et al. Accurate Bond and Angle Parameters for X-ray Protein Structure Refinement , 1991 .
[5] K. Mizuguchi,et al. An iterative structure‐assisted approach to sequence alignment and comparative modeling , 1999, Proteins.
[6] Richard Bonneau,et al. Ab initio protein structure prediction: progress and prospects. , 2001, Annual review of biophysics and biomolecular structure.
[7] K. Ginalski. Comparative modeling for protein structure prediction. , 2006, Current opinion in structural biology.
[8] N. Guex,et al. SWISS‐MODEL and the Swiss‐Pdb Viewer: An environment for comparative protein modeling , 1997, Electrophoresis.
[9] David F. Burke,et al. Andante: reducing side-chain rotamer search space during comparative modeling using environment-specific substitution probabilities , 2007, Bioinform..
[10] M. Gerstein,et al. Average core structures and variability measures for protein families: application to the immunoglobulins. , 1995, Journal of molecular biology.
[11] M. DePristo,et al. Discrete restraint‐based protein modeling and the Cα‐trace problem , 2003 .
[12] T L Blundell,et al. A variable gap penalty function and feature weights for protein 3-D structure comparisons. , 1992, Protein engineering.
[13] Charlotte M. Deane,et al. JOY: protein sequence-structure representation and analysis , 1998, Bioinform..
[14] Yang Zhang,et al. TASSER: An automated method for the prediction of protein tertiary structures in CASP6 , 2005, Proteins.
[15] John P. Overington,et al. From comparisons of protein sequences and structures to protein modelling and design. , 1990, Trends in biochemical sciences.
[16] A. Sali,et al. Modeller: generation and refinement of homology-based protein structure models. , 2003, Methods in enzymology.
[17] Cristina Del Bianco,et al. Paramagnetism-based refinement strategy for the solution structure of human alpha-parvalbumin. , 2004, Biochemistry.
[18] A. Fiser. Protein structure modeling in the proteomics era , 2004, Expert review of proteomics.
[19] John P. Overington,et al. HOMSTRAD: A database of protein structure alignments for homologous families , 1998, Protein science : a publication of the Protein Society.
[20] M. DePristo,et al. Is one solution good enough? , 2006, Nature Structural &Molecular Biology.
[21] S. P. Clark,et al. MALIGNED: a multiple sequence alignment editor , 1992, Comput. Appl. Biosci..
[22] J. Ponder,et al. An efficient newton‐like method for molecular mechanics energy minimization of large molecules , 1987 .
[23] B Contreras-Moreira,et al. Empirical limits for template‐based protein structure prediction: the CASP5 example , 2005, FEBS letters.
[24] C Venclovas,et al. Processing and analysis of CASP3 protein structure predictions , 1999, Proteins.
[25] T. Blundell,et al. Evolution and the tertiary structure of proteins. , 1984, Annual review of biophysics and bioengineering.
[26] P. Røgen,et al. Automatic classification of protein structure by using Gauss integrals , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[27] M. DePristo,et al. Ab initio construction of polypeptide fragments: Efficient generation of accurate, representative ensembles , 2003, Proteins.
[28] T. Blundell,et al. Rappertk: a versatile engine for discrete restraint-based conformational sampling of macromolecules , 2007, BMC Structural Biology.
[29] Tom L. Blundell,et al. CHORAL: a differential geometry approach to the prediction of the cores of protein structures , 2005, Bioinform..
[30] Nicholas Furnham,et al. Knowledge-based real-space explorations for low-resolution structure determination. , 2006, Structure.
[31] M J Sternberg,et al. Enhancement of protein modeling by human intervention in applying the automatic programs 3D‐JIGSAW and 3D‐PSSM , 2001, Proteins.
[32] M. DePristo,et al. Ab initio construction of polypeptide fragments: Accuracy of loop decoy discrimination by an all‐atom statistical potential and the AMBER force field with the Generalized Born solvation model , 2003, Proteins.
[33] John P. Overington,et al. An assessment of COMPOSER: a rule-based approach to modelling protein structure. , 1990, Biochemical Society symposium.
[34] Nicholas Furnham,et al. Conformer generation under restraints. , 2006, Current opinion in structural biology.
[35] Mark A Depristo,et al. Crystallographic refinement by knowledge-based exploration of complex energy landscapes. , 2005, Structure.
[36] M. DePristo,et al. Discrete restraint-based protein modeling and the Calpha-trace problem. , 2003, Protein science : a publication of the Protein Society.
[37] John Moult,et al. A decade of CASP: progress, bottlenecks and prognosis in protein structure prediction. , 2005, Current opinion in structural biology.
[38] Yang Zhang,et al. Scoring function for automated assessment of protein structure template quality , 2004, Proteins.
[39] Janusz M Bujnicki,et al. Generalized protein structure prediction based on combination of fold‐recognition with de novo folding and evaluation of models , 2005, Proteins.
[40] Arne Elofsson,et al. MaxSub: an automated measure for the assessment of protein structure prediction quality , 2000, Bioinform..
[41] K. Wüthrich. Protein structure determination in solution by NMR spectroscopy. , 1990, The Journal of biological chemistry.