Literature DB >> 10700142

Structural genomics and its importance for gene function analysis.

J Skolnick1, J S Fetrow, A Kolinski.   

Abstract

Structural genomics projects aim to solve the experimental structures of all possible protein folds. Such projects entail a conceptual shift from traditional structural biology in which structural information is obtained on known proteins to one in which the structure of a protein is determined first and the function assigned only later. Whereas the goal of converting protein structure into function can be accomplished by traditional sequence motif-based approaches, recent studies have shown that assignment of a protein's biochemical function can also be achieved by scanning its structure for a match to the geometry and chemical identity of a known active site. Importantly, this approach can use low-resolution structures provided by contemporary structure prediction methods. When applied to genomes, structural information (either experimental or predicted) is likely to play an important role in high-throughput function assignment.

Mesh:

Year:  2000        PMID: 10700142     DOI: 10.1038/73723

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN: 1087-0156            Impact factor:   54.908


  65 in total

1.  CKAAPs DB: a conserved key amino acid positions database.

Authors:  W W Li; B V Reddy; I N Shindyalov; P E Bourne
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

2.  Links from genome proteins to known 3-D structures.

Authors:  Y Wang; S Bryant; R Tatusov; T Tatusova
Journal:  Genome Res       Date:  2000-10       Impact factor: 9.043

3.  Motif-based fold assignment.

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

4.  Crystal structure of the quorum-sensing protein LuxS reveals a catalytic metal site.

Authors:  M T Hilgers; M L Ludwig
Journal:  Proc Natl Acad Sci U S A       Date:  2001-09-11       Impact factor: 11.205

5.  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

6.  Improving threading algorithms for remote homology modeling by combining fragment and template comparisons.

Authors:  Hongyi Zhou; Jeffrey Skolnick
Journal:  Proteins       Date:  2010-07

7.  Proteomics of Mycoplasma genitalium: identification and characterization of unannotated and atypical proteins in a small model genome.

Authors:  S Balasubramanian; T Schneider; M Gerstein; L Regan
Journal:  Nucleic Acids Res       Date:  2000-08-15       Impact factor: 16.971

8.  From protein structure to biochemical function?

Authors:  Roman A Laskowski; James D Watson; Janet M Thornton
Journal:  J Struct Funct Genomics       Date:  2003

9.  Docking of protein models.

Authors:  Andrei Tovchigrechko; Christopher A Wells; Ilya A Vakser
Journal:  Protein Sci       Date:  2002-08       Impact factor: 6.725

10.  Terbium promotes adhesion and osteogenic differentiation of mesenchymal stem cells via activation of the Smad-dependent TGF-β/BMP signaling pathway.

Authors:  Dan-Dan Liu; Kun Ge; Yi Jin; Jing Sun; Shu-Xiang Wang; Meng-Su Yang; Jin-Chao Zhang
Journal:  J Biol Inorg Chem       Date:  2014-03-02       Impact factor: 3.358

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