Analysing six types of protein-protein interfaces.

[1]  Burkhard Rost,et al.  NMPdb: Database of Nuclear Matrix Proteins , 2004, Nucleic Acids Res..

[2]  Letter to the Editor: 1H, 13C and 15N assignments for the Archaeglobus fulgidisprotein AF2095 , 2004, Journal of biomolecular NMR.

[3]  Gaetano T Montelione,et al.  Automatic target selection for structural genomics on eukaryotes , 2004, Proteins.

[4]  Burkhard Rost,et al.  Improving fold recognition without folds. , 2004, Journal of molecular biology.

[5]  Burkhard Rost,et al.  NLProt: extracting protein names and sequences from papers , 2004, Nucleic Acids Res..

[6]  Burkhard Rost,et al.  CHOP: parsing proteins into structural domains , 2004, Nucleic Acids Res..

[7]  Burkhard Rost,et al.  LOCnet and LOCtarget: sub-cellular localization for structural genomics targets , 2004, Nucleic Acids Res..

[8]  B. Rost,et al.  Annotating proteins from endoplasmic reticulum and Golgi apparatus in eukaryotic proteomes , 2004, Cellular and Molecular Life Sciences CMLS.

[9]  Burkhard Rost,et al.  AI and Bioinformatics , 2004, AI Mag..

[10]  Burkhard Rost,et al.  Annotating Protein Function through Lexical Analysis , 2004, AI Mag..

[11]  Burkhard Rost,et al.  The PredictProtein server , 2003, Nucleic Acids Res..

[12]  B. Rost,et al.  Sequence-based prediction of protein domains. , 2004, Nucleic acids research.

[13]  B. Rost,et al.  Automatic prediction of protein function , 2003, Cellular and Molecular Life Sciences CMLS.

[14]  B. Rost,et al.  Solution NMR structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii , 2003, Protein science : a publication of the Protein Society.

[15]  Burkhard Rost,et al.  Static benchmarking of membrane helix predictions , 2003, Nucleic Acids Res..

[16]  Marc A. Martí-Renom,et al.  EVA: evaluation of protein structure prediction servers , 2003, Nucleic Acids Res..

[17]  Burkhard Rost,et al.  NORSp: predictions of long regions without regular secondary structure , 2003, Nucleic Acids Res..

[18]  Burkhard Rost,et al.  LOC3D: annotate sub-cellular localization for protein structures , 2003, Nucleic Acids Res..

[19]  Burkhard Rost,et al.  UniqueProt: creating representative protein sequence sets , 2003, Nucleic Acids Res..

[20]  Burkhard Rost,et al.  DSSPcont: continuous secondary structure assignments for proteins , 2003, Nucleic Acids Res..

[21]  Burkhard Rost,et al.  META-PP: single interface to crucial prediction servers , 2003, Nucleic Acids Res..

[22]  Burkhard Rost,et al.  Rising Accuracy of Protein Secondary Structure Prediction , 2003 .

[23]  Burkhard Rost,et al.  Domains, motifs and clusters in the protein universe. , 2003, Current opinion in chemical biology.

[24]  Don L. Armstrong,et al.  Transmembrane domains in the functions of Fc receptors. , 2002, Biophysical chemistry.

[25]  Burkhard Rost,et al.  PEP: Predictions for Entire Proteomes , 2003, Nucleic Acids Res..

[26]  Burkhard Rost,et al.  NLSdb: database of nuclear localization signals , 2003, Nucleic Acids Res..

[27]  Alfonso Valencia,et al.  CAFASP3 in the spotlight of EVA , 2003, Proteins.

[28]  Burkhard Rost,et al.  Long membrane helices and short loops predicted less accurately , 2002, Protein science : a publication of the Protein Society.

[29]  A. Kernytsky,et al.  Transmembrane helix predictions revisited , 2002, Protein science : a publication of the Protein Society.

[30]  Sarah A. Teichmann,et al.  Principles of protein-protein interactions , 2002, ECCB.

[31]  B. Rost,et al.  Loopy proteins appear conserved in evolution. , 2002, Journal of molecular biology.

[32]  Burkhard Rost,et al.  Target space for structural genomics revisited , 2002, Bioinform..

[33]  Burkhard Rost,et al.  Did evolution leap to create the protein universe? , 2002, Current opinion in structural biology.

[34]  J. Janin,et al.  Dissecting protein–protein recognition sites , 2002, Proteins.

[35]  Pierre Baldi,et al.  Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles , 2002, Proteins.

[36]  B. Rost.  Enzyme function less conserved than anticipated. , 2002, Journal of molecular biology.

[37]  Patrick Aloy,et al.  Interrogating protein interaction networks through structural biology , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[38]  András Fiser,et al.  Molecular Biophysics , 2022 .

[39]  B. Rost,et al.  Alignments grow, secondary structure prediction improves , 2002, Proteins.

[40]  C. A. Andersen,et al.  Continuum secondary structure captures protein flexibility. , 2002, Structure.

[41]  A. Baxevanis,et al.  Predictive methods using protein sequences. , 2006, Methods of biochemical analysis.

[42]  Marc A. Martí-Renom,et al.  EVA: continuous automatic evaluation of protein structure prediction servers , 2001, Bioinform..

[43]  B. Rost,et al.  Comparing function and structure between entire proteomes , 2001, Protein science : a publication of the Protein Society.

[44]  Huan‐Xiang Zhou,et al.  Prediction of protein interaction sites from sequence profile and residue neighbor list , 2001, Proteins.

[45]  M. Sternberg,et al.  Automated structure-based prediction of functional sites in proteins: applications to assessing the validity of inheriting protein function from homology in genome annotation and to protein docking. , 2001, Journal of molecular biology.

[46]  N. Ben-Tal,et al.  Residue frequencies and pairing preferences at protein–protein interfaces , 2001, Proteins.

[47]  B. Rost.  Review: protein secondary structure prediction continues to rise. , 2001, Journal of structural biology.

[48]  J. Skolnick,et al.  Access the most recent version at doi: 10.1110/ps.49201 References , 2000 .

[49]  R. Ozawa,et al.  A comprehensive two-hybrid analysis to explore the yeast protein interactome , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[50]  A. Elcock,et al.  Identification of protein oligomerization states by analysis of interface conservation , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[51]  Volker A. Eyrich,et al.  EVA: Large‐scale analysis of secondary structure prediction , 2001, Proteins.

[52]  Roland L. Dunbrack,et al.  CAFASP2: The second critical assessment of fully automated structure prediction methods , 2001, Proteins.

[53]  B Honig,et al.  An integrated approach to the analysis and modeling of protein sequences and structures. I. Protein structural alignment and a quantitative measure for protein structural distance. , 2000, Journal of molecular biology.

[54]  M. Sippl,et al.  Structure-derived substitution matrices for alignment of distantly related sequences. , 2000, Protein engineering.

[55]  R. Norel,et al.  Electrostatic aspects of protein-protein interactions. , 2000, Current opinion in structural biology.

[56]  James R. Knight,et al.  A comprehensive analysis of protein–protein interactions in Saccharomyces cerevisiae , 2000, Nature.

[57]  S. Jones,et al.  Protein domain interfaces: characterization and comparison with oligomeric protein interfaces. , 2000, Protein engineering.

[58]  T. N. Bhat,et al.  The Protein Data Bank , 2000, Nucleic Acids Res..

[59]  C Sander,et al.  Third generation prediction of secondary structures. , 2000, Methods in molecular biology.

[60]  Ioannis Xenarios,et al.  DIP: the Database of Interacting Proteins , 2000, Nucleic Acids Res..

[61]  Rolf Apweiler,et al.  The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000 , 2000, Nucleic Acids Res..

[62]  M Nayal,et al.  Grass: A server for the graphical representation and analysis of structures , 1999, Protein science : a publication of the Protein Society.

[63]  Burkhard Rost,et al.  A platform for integrating threading results with protein family analyses , 1999, Bioinform..

[64]  B. Rost,et al.  Effective use of sequence correlation and conservation in fold recognition. , 1999, Journal of molecular biology.

[65]  M J Sternberg,et al.  Use of pair potentials across protein interfaces in screening predicted docked complexes , 1999, Proteins.

[66]  C. Chothia,et al.  The atomic structure of protein-protein recognition sites. , 1999, Journal of molecular biology.

[67]  B. Rost,et al.  A modified definition of Sov, a segment‐based measure for protein secondary structure prediction assessment , 1999, Proteins.

[68]  B. Rost.  Twilight zone of protein sequence alignments. , 1999, Protein engineering.

[69]  Fabio Polticelli,et al.  Structural determinants of trypsin affinity and specificity for cationic inhibitors , 1999, Protein science : a publication of the Protein Society.

[70]  D Fischer,et al.  CAFASP‐1: Critical assessment of fully automated structure prediction methods , 1999, Proteins.

[71]  O. Ptitsyn,et al.  Empirical solvent‐mediated potentials hold for both intra‐molecular and inter‐molecular inter‐residue interactions , 1998, Protein science : a publication of the Protein Society.

[72]  J. Thornton,et al.  PQS: a protein quaternary structure file server. , 1998, Trends in biochemical sciences.

[73]  A. Bogan,et al.  Anatomy of hot spots in protein interfaces. , 1998, Journal of molecular biology.

[74]  S. Jones,et al.  Analysis of protein-protein interaction sites using surface patches. , 1997, Journal of molecular biology.

[75]  S. Jones,et al.  Prediction of protein-protein interaction sites using patch analysis. , 1997, Journal of molecular biology.

[76]  A. McCoy,et al.  Electrostatic complementarity at protein/protein interfaces. , 1997, Journal of molecular biology.

[77]  R. Jernigan,et al.  Inter-residue potentials in globular proteins and the dominance of highly specific hydrophilic interactions at close separation. , 1997, Journal of molecular biology.

[78]  R. Nussinov,et al.  Protein binding versus protein folding: the role of hydrophilic bridges in protein associations. , 1997, Journal of molecular biology.

[79]  Rolf Apweiler,et al.  The SWISS-PROT protein sequence data bank and its supplement TrEMBL , 1997, Nucleic Acids Res..

[80]  B. Efron,et al.  Bootstrap confidence levels for phylogenetic trees. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[81]  B. Efron,et al.  Bootstrap confidence levels for phylogenetic trees. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[82]  R. Jernigan,et al.  Structure-derived potentials and protein simulations. , 1996, Current opinion in structural biology.

[83]  B. Honig,et al.  Classical electrostatics in biology and chemistry. , 1995, Science.

[84]  H. Margalit,et al.  Conservation of salt bridges in protein families. , 1995, Journal of molecular biology.

[85]  M J Sippl,et al.  Knowledge-based potentials for proteins. , 1995, Current opinion in structural biology.

[86]  B. Rost,et al.  Combining evolutionary information and neural networks to predict protein secondary structure , 1994, Proteins.

[87]  Jianhua Lin,et al.  Divergence measures based on the Shannon entropy , 1991, IEEE Trans. Inf. Theory.

[88]  G. Casari,et al.  Identification of native protein folds amongst a large number of incorrect models. The calculation of low energy conformations from potentials of mean force. , 1990, Journal of molecular biology.

[89]  R. Royall.  The Effect of Sample Size on the Meaning of Significance Tests , 1986 .

[90]  W. Kabsch,et al.  Dictionary of protein secondary structure: Pattern recognition of hydrogen‐bonded and geometrical features , 1983, Biopolymers.

[91]  R. Doolittle,et al.  A simple method for displaying the hydropathic character of a protein. , 1982, Journal of molecular biology.

[92]  G J Williams,et al.  The Protein Data Bank: a computer-based archival file for macromolecular structures. , 1978, Archives of biochemistry and biophysics.