Enhanced genome annotation using structural profiles in the program 3D-PSSM.
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[1] M. Greenwood. An Introduction to Medical Statistics , 1932, Nature.
[2] S. B. Needleman,et al. A general method applicable to the search for similarities in the amino acid sequence of two proteins. , 1970, Journal of molecular biology.
[3] O. Gotoh. An improved algorithm for matching biological sequences. , 1982, Journal of molecular biology.
[4] W. Kabsch,et al. Dictionary of protein secondary structure: Pattern recognition of hydrogen‐bonded and geometrical features , 1983, Biopolymers.
[5] W R Taylor,et al. Protein structure alignment. , 1989, Journal of molecular biology.
[6] S. Karlin,et al. Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes. , 1990, Proceedings of the National Academy of Sciences of the United States of America.
[7] M. Sippl. Calculation of conformational ensembles from potentials of mean force. An approach to the knowledge-based prediction of local structures in globular proteins. , 1990, Journal of molecular biology.
[8] D. Eisenberg,et al. A method to identify protein sequences that fold into a known three-dimensional structure. , 1991, Science.
[9] K Morikawa,et al. Structural details of ribonuclease H from Escherichia coli as refined to an atomic resolution. , 1992, Journal of molecular biology.
[10] D. T. Jones,et al. A new approach to protein fold recognition , 1992, Nature.
[11] W R Taylor,et al. Fast structure alignment for protein databank searching , 1992, Proteins.
[12] A. Godzik,et al. Topology fingerprint approach to the inverse protein folding problem. , 1992, Journal of molecular biology.
[13] John P. Overington,et al. Alignment and searching for common protein folds using a data bank of structural templates. , 1993, Journal of molecular biology.
[14] D. Haussler,et al. Hidden Markov models in computational biology. Applications to protein modeling. , 1993, Journal of molecular biology.
[15] R. Kaptein,et al. Solution structure of the LexA repressor DNA binding domain determined by 1H NMR spectroscopy. , 1994, The EMBO journal.
[16] S. Henikoff,et al. Position-based sequence weights. , 1994, Journal of molecular biology.
[17] S. Bryant,et al. Threading a database of protein cores , 1995, Proteins.
[18] A G Murzin,et al. SCOP: a structural classification of proteins database for the investigation of sequences and structures. , 1995, Journal of molecular biology.
[19] T. Steitz,et al. Recombining the structures of HIV integrase, RuvC and RNase H. , 1995, Structure.
[20] P. Argos,et al. Knowledge‐based protein secondary structure assignment , 1995, Proteins.
[21] S. Eddy. Hidden Markov models. , 1996, Current opinion in structural biology.
[22] S. Bryant. Evaluation of threading specificity and accuracy , 1996, Proteins.
[23] R. King,et al. Identification and application of the concepts important for accurate and reliable protein secondary structure prediction , 1996, Protein science : a publication of the Protein Society.
[24] D. Fischer,et al. A study of combined structure/sequence profiles. , 1996, Folding & design.
[25] D. Fischer,et al. Protein fold recognition using sequence‐derived predictions , 1996, Protein science : a publication of the Protein Society.
[26] G. Barton,et al. Protein fold recognition by mapping predicted secondary structures. , 1996, Journal of molecular biology.
[27] F. Cohen,et al. Multiple sequence information for threading algorithms. , 1996, Journal of molecular biology.
[28] L. Kelley,et al. An automated approach for clustering an ensemble of NMR-derived protein structures into conformationally related subfamilies. , 1996, Protein engineering.
[29] M. Jaskólski,et al. The catalytic domain of avian sarcoma virus integrase: conformation of the active-site residues in the presence of divalent cations. , 1996, Structure.
[30] D. Fischer,et al. Assigning folds to the proteins encoded by the genome of Mycoplasma genitalium. , 1997, Proceedings of the National Academy of Sciences of the United States of America.
[31] B. Rost,et al. Protein fold recognition by prediction-based threading. , 1997, Journal of molecular biology.
[32] David C. Jones,et al. Progress in protein structure prediction. , 1997, Current opinion in structural biology.
[33] C. Gualerzi,et al. The structure of the translational initiation factor IF1 from E.coli contains an oligomer‐binding motif , 1997, The EMBO journal.
[34] Ralf Zimmer,et al. New scoring Schemes for Protein fold recognition based on Voronoi contacts , 1997, German Conference on Bioinformatics.
[35] Gapped BLAST and PSI-BLAST: A new , 1997 .
[36] Rolf Apweiler,et al. The SWISS-PROT protein sequence data bank and its supplement TrEMBL , 1997, Nucleic Acids Res..
[37] M. Eren,et al. Control of oxidation-reduction potentials in flavodoxin from Clostridium beijerinckii: the role of conformation changes. , 1997, Biochemistry.
[38] M Levitt,et al. Competitive assessment of protein fold recognition and alignment accuracy , 1997, Proteins.
[39] J L Sussman,et al. Protein Data Bank archives of three-dimensional macromolecular structures. , 1997, Methods in enzymology.
[40] Mark Proctor,et al. The Solution Structure of the S1 RNA Binding Domain: A Member of an Ancient Nucleic Acid–Binding Fold , 1997, Cell.
[41] Rolf Apweiler,et al. The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1998 , 1998, Nucleic Acids Res..
[42] A. Godzik,et al. Fold and function predictions for Mycoplasma genitalium proteins. , 1998, Folding & design.
[43] Durbin,et al. Biological Sequence Analysis , 1998 .
[44] M J Sternberg,et al. Recognition of analogous and homologous protein folds--assessment of prediction success and associated alignment accuracy using empirical substitution matrices. , 1998, Protein engineering.
[45] Chris Sander,et al. Touring protein fold space with Dali/FSSP , 1998, Nucleic Acids Res..
[46] C. Chothia,et al. Assessing sequence comparison methods with reliable structurally identified distant evolutionary relationships. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[47] D. Haussler,et al. Sequence comparisons using multiple sequences detect three times as many remote homologues as pairwise methods. , 1998, Journal of molecular biology.
[48] M J Sternberg,et al. Supersites within superfolds. Binding site similarity in the absence of homology. , 1998, Journal of molecular biology.
[49] W. C. Barker,et al. The PIR-International Protein Sequence Database. , 1998, Nucleic acids research.
[50] D. T. Jones,et al. Successful recognition of protein folds using threading methods biased by sequence similarity and predicted secondary structure , 1999, Proteins.
[51] R Thiele,et al. Protein threading by recursive dynamic programming. , 1999, Journal of molecular biology.
[52] L. Mirny,et al. Universally conserved positions in protein folds: reading evolutionary signals about stability, folding kinetics and function. , 1999, Journal of molecular biology.
[53] R. Copley,et al. Fold recognition using sequence and secondary structure information , 1999, Proteins.
[54] A. Panchenko,et al. Threading with explicit models for evolutionary conservation of structure and sequence , 1999, Proteins.
[55] D T Jones,et al. Protein secondary structure prediction based on position-specific scoring matrices. , 1999, Journal of molecular biology.
[56] M. Sternberg,et al. Benchmarking PSI-BLAST in genome annotation. , 1999, Journal of molecular biology.
[57] M Gerstein,et al. Advances in structural genomics. , 1999, Current opinion in structural biology.
[58] M. Gerstein,et al. The relationship between protein structure and function: a comprehensive survey with application to the yeast genome. , 1999, Journal of molecular biology.
[59] David C. Jones,et al. GenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences. , 1999, Journal of molecular biology.
[60] D Fischer,et al. CAFASP‐1: Critical assessment of fully automated structure prediction methods , 1999, Proteins.
[61] A. Godzik,et al. Functional insights from structural predictions: Analysis of the Escherichia coli genome , 2008, Protein science : a publication of the Protein Society.
[62] A. Murzin. Structure classification‐based assessment of CASP3 predictions for the fold recognition targets , 1999, Proteins.
[63] Rolf Apweiler,et al. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000 , 2000, Nucleic Acids Res..