Functional annotation of proteomic sequences based on consensus of sequence and structural analysis.
To maximise the assignment of function of the proteins encoded by a genome and to aid the search for novel drug targets, there is an emerging need for sensitive methods of predicting protein function on a genome-wide basis. GeneAtlas is an automated, high-throughput pipeline for the prediction of protein structure and function using sequence similarity detection, homology modelling and fold recognition methods. GeneAtlas is described in detail here. To test GeneAtlas, a 'virtual' genome was used, a subset of PDB structures from the SCOP database, in which the functional relationships are known. GeneAtlas detects additional relationships by building 3D models in comparison with the sequence searching method PSI-BLAST. Functionally related proteins with sequence identity below the twilight zone can be recognised correctly.
Kitson
David H
DH
Life Sciences Marketing Group of Accelrys Inc, Cambridge, UK. dkitson@accelrys.com
Badretdinov
Azat
A
Zhu
Zhan-yang
ZY
Velikanov
Mikhail
M
Edwards
David J
DJ
Olszewski
Krzysztof
K
Szalma
Sándor
S
Yan
Lisa
L
D016384:Consensus Sequence; D030541:Databases, Genetic; D020543:Proteome; D020539:Sequence Analysis, Protein; D013329:Structure-Activity Relationship
D020543:Proteome