Literature DB >> 10631780

From genes to protein structure and function: novel applications of computational approaches in the genomic era.

J Skolnick1, J S Fetrow.   

Abstract

The genome-sequencing projects are providing a detailed 'parts list' of life. A key to comprehending this list is understanding the function of each gene and each protein at various levels. Sequence-based methods for function prediction are inadequate because of the multifunctional nature of proteins. However, just knowing the structure of the protein is also insufficient for prediction of multiple functional sites. Structural descriptors for protein functional sites are crucial for unlocking the secrets in both the sequence and structural-genomics projects.

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Year:  2000        PMID: 10631780     DOI: 10.1016/s0167-7799(99)01398-0

Source DB:  PubMed          Journal:  Trends Biotechnol        ISSN: 0167-7799            Impact factor:   19.536


  38 in total

1.  Motif-based fold assignment.

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

2.  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

3.  Future directions in protein function prediction.

Authors:  Ihsan A Shehadi; Huyuan Yang; Mary Jo Ondrechen
Journal:  Mol Biol Rep       Date:  2002-12       Impact factor: 2.316

Review 4.  Applications of NMR to structure-based drug design in structural genomics.

Authors:  Robert Powers
Journal:  J Struct Funct Genomics       Date:  2002

5.  Crowding and hydrodynamic interactions likely dominate in vivo macromolecular motion.

Authors:  Tadashi Ando; Jeffrey Skolnick
Journal:  Proc Natl Acad Sci U S A       Date:  2010-10-11       Impact factor: 11.205

6.  A semantic analysis of the annotations of the human genome.

Authors:  Purvesh Khatri; Bogdan Done; Archana Rao; Arina Done; Sorin Draghici
Journal:  Bioinformatics       Date:  2005-06-14       Impact factor: 6.937

7.  TASSER-Lite: an automated tool for protein comparative modeling.

Authors:  Shashi Bhushan Pandit; Yang Zhang; Jeffrey Skolnick
Journal:  Biophys J       Date:  2006-09-08       Impact factor: 4.033

8.  Localization of ligand binding site in proteins identified in silico.

Authors:  Michal Brylinski; Marek Kochanczyk; Elzbieta Broniatowska; Irena Roterman
Journal:  J Mol Model       Date:  2007-03-30       Impact factor: 1.810

Review 9.  FINDSITE: a combined evolution/structure-based approach to protein function prediction.

Authors:  Jeffrey Skolnick; Michal Brylinski
Journal:  Brief Bioinform       Date:  2009-03-26       Impact factor: 11.622

10.  THEMATICS: a simple computational predictor of enzyme function from structure.

Authors:  M J Ondrechen; J G Clifton; D Ringe
Journal:  Proc Natl Acad Sci U S A       Date:  2001-10-16       Impact factor: 11.205

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