Literature DB >> 11104007

Protein structure modeling for structural genomics.

R Sánchez1, U Pieper, F Melo, N Eswar, M A Martí-Renom, M S Madhusudhan, N Mirković, A Sali.   

Abstract

The shapes of most protein sequences will be modeled based on their similarity to experimentally determined protein structures. The current role, limitations, challenges and prospects for protein structure modeling (using information about genes and genomes) are discussed in the context of structural genomics.

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Substances：

Year:  2000        PMID： 11104007     DOI： 10.1038/80776

Source DB:  PubMed          Journal:  Nat Struct Biol        ISSN： 1072-8368


  54 in total

1.  MODBASE, a database of annotated comparative protein structure models.

Authors:  Ursula Pieper; Narayanan Eswar; Ashley C Stuart; Valentin A Ilyin; Andrej Sali
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

2.  SUPFAM--a database of potential protein superfamily relationships derived by comparing sequence-based and structure-based families: implications for structural genomics and function annotation in genomes.

Authors:  Shashi B Pandit; Dilip Gosar; S Abhiman; S Sujatha; Sayali S Dixit; Natasha S Mhatre; R Sowdhamini; N Srinivasan
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

Review 3.  Structural genomics: a pipeline for providing structures for the biologist.

Authors:  Mark R Chance; Anne R Bresnick; Stephen K Burley; Jian-Sheng Jiang; Christopher D Lima; Andrej Sali; Steven C Almo; Jeffrey B Bonanno; John A Buglino; Simon Boulton; Hua Chen; Narayanan Eswar; Guoshun He; Raymond Huang; Valentin Ilyin; Linda McMahan; Ursula Pieper; Soumya Ray; Marc Vidal; Li Kai Wang
Journal:  Protein Sci       Date:  2002-04       Impact factor: 6.725

4.  A global representation of the protein fold space.

Authors:  Jingtong Hou; Gregory E Sims; Chao Zhang; Sung-Hou Kim
Journal:  Proc Natl Acad Sci U S A       Date:  2003-02-26       Impact factor: 11.205

5.  Coverage of protein sequence space by current structural genomics targets.

Authors:  Nicholas O'Toole; Stéphane Raymond; Miroslaw Cygler
Journal:  J Struct Funct Genomics       Date:  2003

6.  Improvement of comparative modeling by the application of conserved motifs amongst distantly related proteins as additional restraints.

Authors:  Saikat Chakrabarti; Jaisurya John; Ramanathan Sowdhamini
Journal:  J Mol Model       Date:  2003-12-23       Impact factor: 1.810

7.  The SWISS-MODEL Repository of annotated three-dimensional protein structure homology models.

Authors:  Jürgen Kopp; Torsten Schwede
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

8.  NMR-validated structural model for oxidized Rhodopseudomonas palustris cytochrome c(556).

Authors:  Ivano Bertini; Jasmin Faraone-Mennella; Harry B Gray; Claudio Luchinat; Giacomo Parigi; Jay R Winkler
Journal:  J Biol Inorg Chem       Date:  2004-01-20       Impact factor: 3.358

9.  Associative memory Hamiltonians for structure prediction without homology: alpha/beta proteins.

Authors:  Corey Hardin; Michael P Eastwood; Michael C Prentiss; Zadia Luthey-Schulten; Peter G Wolynes
Journal:  Proc Natl Acad Sci U S A       Date:  2003-01-28       Impact factor: 11.205

10.  Tools for comparative protein structure modeling and analysis.

Authors:  Narayanan Eswar; Bino John; Nebojsa Mirkovic; Andras Fiser; Valentin A Ilyin; Ursula Pieper; Ashley C Stuart; Marc A Marti-Renom; M S Madhusudhan; Bozidar Yerkovich; Andrej Sali
Journal:  Nucleic Acids Res       Date:  2003-07-01       Impact factor: 16.971
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