The long coming of computational structural biology.
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[1] A. Kajava,et al. Review: proteins with repeated sequence--structural prediction and modeling. , 2001, Journal of structural biology.
[2] Krzysztof Fidelis,et al. Progress from CASP6 to CASP7 , 2007, Proteins.
[3] L. Pauling,et al. Two hydrogen-bonded spiral configurations of the polypeptide chain , 1950 .
[4] C. Ponting,et al. Protein repeats: structures, functions, and evolution. , 2001, Journal of structural biology.
[5] Erik L. L. Sonnhammer,et al. A Hidden Markov Model for Predicting Transmembrane Helices in Protein Sequences , 1998, ISMB.
[6] K. Aertgeerts,et al. Rational design of complex formation between plasminogen activator inhibitor-1 and its target proteinases. , 1997, Journal of structural biology.
[7] Brendan Borrell,et al. Chemistry: Power play , 2008, Nature.
[8] V. Pande,et al. Heterogeneity even at the speed limit of folding: large-scale molecular dynamics study of a fast-folding variant of the villin headpiece. , 2007, Journal of molecular biology.
[9] D. Lipman,et al. Rapid similarity searches of nucleic acid and protein data banks. , 1983, Proceedings of the National Academy of Sciences of the United States of America.
[10] Peter A. Kollman,et al. AMBER: Assisted model building with energy refinement. A general program for modeling molecules and their interactions , 1981 .
[11] T M Handel,et al. Review: protein design--where we were, where we are, where we're going. , 2001, Journal of structural biology.
[12] A. Steven,et al. New HEAT-like repeat motifs in proteins regulating proteasome structure and function. , 2004, Journal of structural biology.
[13] A. Mclachlan,et al. Repeating Sequences and Gene Duplication in Proteins , 1989 .
[14] P. Bradley,et al. Toward High-Resolution de Novo Structure Prediction for Small Proteins , 2005, Science.
[15] D E McRee,et al. XtalView/Xfit--A versatile program for manipulating atomic coordinates and electron density. , 1999, Journal of structural biology.
[16] John Moult,et al. Comparative modeling in structural genomics. , 2008, Structure.
[17] L. Pauling,et al. The pleated sheet, a new layer configuration of polypeptide chains. , 1951, Proceedings of the National Academy of Sciences of the United States of America.
[18] C. Levinthal. Are there pathways for protein folding , 1968 .
[19] A. Mclachlan. Gene duplication and the origin of repetitive protein structures. , 1987, Cold Spring Harbor symposia on quantitative biology.
[20] F. Crick,et al. Is α-Keratin a Coiled Coil? , 1952, Nature.
[21] D. Parry. Coiled-coils in α-helix-containing proteins: analysis of the residue types within the heptad repeat and the use of these data in the prediction of coiled-coils in other proteins , 1982, Bioscience reports.
[22] C. Anfinsen,et al. The kinetics of formation of native ribonuclease during oxidation of the reduced polypeptide chain. , 1961, Proceedings of the National Academy of Sciences of the United States of America.
[23] K Schulten,et al. VMD: visual molecular dynamics. , 1996, Journal of molecular graphics.
[24] J M Thornton,et al. Successful protein fold recognition by optimal sequence threading validated by rigorous blind testing , 1995, Proteins.
[25] M. Karplus,et al. CHARMM: A program for macromolecular energy, minimization, and dynamics calculations , 1983 .
[26] K Y Sanbonmatsu,et al. High performance computing in biology: multimillion atom simulations of nanoscale systems. , 2007, Journal of structural biology.
[27] A. Lupas,et al. Classification of AAA+ proteins. , 2006, Journal of structural biology.
[28] Marco Punta,et al. Membrane protein prediction methods. , 2007, Methods.
[29] Sergei V Strelkov,et al. Analysis of alpha-helical coiled coils with the program TWISTER reveals a structural mechanism for stutter compensation. , 2002, Journal of structural biology.
[30] L. Pauling,et al. Atomic coordinates and structure factors for two helical configurations of polypeptide chains. , 1951, Proceedings of the National Academy of Sciences of the United States of America.
[31] F. Sanger,et al. The amide groups of insulin. , 1955, The Biochemical journal.
[32] Shoshana J. Wodak,et al. Knowledge Based Potentials for Predicting the Three-Dimensional Conformation of Proteins , 1994 .
[33] L. Pauling,et al. Configuration of Polypeptide Chains , 1951, Nature.
[34] Vijay S. Pande,et al. Screen Savers of the World Unite! , 2000, Science.
[35] D. Woolfson,et al. Generalized Crick equations for modeling noncanonical coiled coils. , 2002, Journal of structural biology.
[36] Sean R. Eddy,et al. Profile hidden Markov models , 1998, Bioinform..
[37] Detlef D. Leipe,et al. Evolutionary history and higher order classification of AAA+ ATPases. , 2004, Journal of structural biology.
[38] C. Ponting,et al. On the evolution of protein folds: are similar motifs in different protein folds the result of convergence, insertion, or relics of an ancient peptide world? , 2001, Journal of structural biology.
[39] S. Bryant,et al. Critical assessment of methods of protein structure prediction (CASP): Round II , 1997, Proteins.
[40] Ceslovas Venclovas,et al. Progress over the first decade of CASP experiments , 2005, Proteins.
[41] B Francis,et al. Power play. , 1989, Advancing clinical care : official journal of NOAADN.
[42] Eric Schulman,et al. A Briefer History of Time , 1999 .
[43] J. Ramshaw,et al. Gly-X-Y tripeptide frequencies in collagen: a context for host-guest triple-helical peptides. , 1998, Journal of structural biology.
[44] Johannes Söding,et al. Protein homology detection by HMM?CHMM comparison , 2005, Bioinform..
[45] H. Guy,et al. Structural models of the transmembrane region of voltage-gated and other K+ channels in open, closed, and inactivated conformations. , 1998, Journal of structural biology.
[46] Johannes Söding,et al. Comparative analysis of coiled-coil prediction methods. , 2006, Journal of structural biology.
[47] Mark Israel,et al. XtalView, protein structure solution and protein graphics, a short history. , 2008, Journal of structural biology.
[48] A. Mclachlan. Tests for comparing related amino-acid sequences. Cytochrome c and cytochrome c 551 . , 1971, Journal of molecular biology.
[49] B. Rost,et al. Prediction of protein secondary structure at better than 70% accuracy. , 1993, Journal of molecular biology.
[50] B. Rost. Review: protein secondary structure prediction continues to rise. , 2001, Journal of structural biology.
[51] A. Lustig,et al. Removing an interhelical salt bridge abolishes coiled-coil formation in a de novo designed peptide. , 2002, Journal of structural biology.
[52] Frieeland Judson Horace. The eighth day of creation , 1979 .
[53] G. N. Ramachandran,et al. Structure of Collagen , 1955, Nature.
[54] Francis Crick,et al. The Fourier transform of a coiled-coil , 1953 .
[55] Richard Bonneau,et al. Ab initio protein structure prediction of CASP III targets using ROSETTA , 1999, Proteins.
[56] Nagasuma Chandra,et al. PocketDepth: a new depth based algorithm for identification of ligand binding sites in proteins. , 2008, Journal of structural biology.
[57] Sharon Beder,et al. Power play. , 1994, Nursing standard (Royal College of Nursing (Great Britain) : 1987).
[58] R. Jernigan,et al. Global ribosome motions revealed with elastic network model. , 2004, Journal of structural biology.
[59] Y. Duan,et al. Folding free-energy landscape of villin headpiece subdomain from molecular dynamics simulations , 2007, Proceedings of the National Academy of Sciences.
[60] N. Grishin. Fold change in evolution of protein structures. , 2001, Journal of structural biology.
[61] Paul L. Mariani. The Eighth Day of Creation: William Carlos Williams' Late Poems , 1975 .
[62] K. Koretke,et al. Bioinformatic analysis of ClpS, a protein module involved in prokaryotic and eukaryotic protein degradation. , 2003, Journal of structural biology.
[63] F. Crick,et al. The packing of α‐helices: simple coiled‐coils , 1953 .
[64] G. Wolff,et al. Molecular modeling of the myosin-S1(A1) isoform. , 2007, Journal of structural biology.
[65] Andrei N Lupas,et al. Phylogenetic analysis of AAA proteins. , 2004, Journal of structural biology.
[66] L. Pauling,et al. Compound Helical Configurations of Polypeptide Chains: Structure of Proteins of the α-Keratin Type , 1953, Nature.
[67] E. Myers,et al. Basic local alignment search tool. , 1990, Journal of molecular biology.
[68] S. Wodak,et al. Docking and scoring protein complexes: CAPRI 3rd Edition , 2007, Proteins.