Literature DB >> 10878259

The role of protein structure in genomics.

F S Domingues1, W A Koppensteiner, M J Sippl.   

Abstract

The genome projects produce an enormous amount of sequence data that needs to be annotated in terms of molecular structure and biological function. These tasks have triggered additional initiatives like structural genomics. The intention is to determine as many protein structures as possible, in the most efficient way, and to exploit the solved structures for the assignment of biological function to hypothetical proteins. We discuss the impact of these developments on protein classification, gene function prediction, and protein structure prediction.

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Year:  2000        PMID: 10878259     DOI: 10.1016/s0014-5793(00)01678-1

Source DB:  PubMed          Journal:  FEBS Lett        ISSN: 0014-5793            Impact factor:   4.124


  13 in total

1.  Motif-based fold assignment.

Authors:  L Salwinski; D Eisenberg
Journal:  Protein Sci       Date:  2001-12       Impact factor: 6.725

2.  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

3.  A normalized root-mean-square distance for comparing protein three-dimensional structures.

Authors:  O Carugo; S Pongor
Journal:  Protein Sci       Date:  2001-07       Impact factor: 6.725

4.  MAMMOTH (matching molecular models obtained from theory): an automated method for model comparison.

Authors:  Angel R Ortiz; Charlie E M Strauss; Osvaldo Olmea
Journal:  Protein Sci       Date:  2002-11       Impact factor: 6.725

5.  Enlarged FAMSBASE: protein 3D structure models of genome sequences for 41 species.

Authors:  Akihiro Yamaguchi; Mitsuo Iwadate; Ei-ichiro Suzuki; Kei Yura; Shigetsugu Kawakita; Hideaki Umeyama; Mitiko Go
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

6.  Exploring the sequence-structure protein landscape in the glycosyltransferase family.

Authors:  Ziding Zhang; Sunil Kochhar; Martin Grigorov
Journal:  Protein Sci       Date:  2003-10       Impact factor: 6.725

7.  Coverage of whole proteome by structural genomics observed through protein homology modeling database.

Authors:  Kei Yura; Akihiro Yamaguchi; Mitiko Go
Journal:  J Struct Funct Genomics       Date:  2006-12-05

8.  MODBASE: a database of annotated comparative protein structure models and associated resources.

Authors:  Ursula Pieper; Narayanan Eswar; Fred P Davis; Hannes Braberg; M S Madhusudhan; Andrea Rossi; Marc Marti-Renom; Rachel Karchin; Ben M Webb; David Eramian; Min-Yi Shen; Libusha Kelly; Francisco Melo; Andrej Sali
Journal:  Nucleic Acids Res       Date:  2006-01-01       Impact factor: 16.971

9.  CX, DPX and PRIDE: WWW servers for the analysis and comparison of protein 3D structures.

Authors:  Kristian Vlahovicek; Alessandro Pintar; Laavanya Parthasarathi; Oliviero Carugo; Sándor Pongor
Journal:  Nucleic Acids Res       Date:  2005-07-01       Impact factor: 16.971

10.  MODBASE, a database of annotated comparative protein structure models and associated resources.

Authors:  Ursula Pieper; Narayanan Eswar; Ben M Webb; David Eramian; Libusha Kelly; David T Barkan; Hannah Carter; Parminder Mankoo; Rachel Karchin; Marc A Marti-Renom; Fred P Davis; Andrej Sali
Journal:  Nucleic Acids Res       Date:  2008-10-23       Impact factor: 16.971

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