The COG database: new developments in phylogenetic classification of proteins from complete genomes.

Nucleic acids research ·Vol. 29 ·No. 1 ·2001-01-01 ·Pages 22-8

Tatusov RL, Natale DA, Garkavtsev IV, Tatusova TA, Shankavaram UT, Rao BS, Kiryutin B, Galperin MY, Fedorova ND, Koonin EV

Abstract

The database of Clusters of Orthologous Groups of proteins (COGs), which represents an attempt on a phylogenetic classification of the proteins encoded in complete genomes, currently consists of 2791 COGs including 45 350 proteins from 30 genomes of bacteria, archaea and the yeast Saccharomyces cerevisiae (http://www.ncbi.nlm.nih. gov/COG). In addition, a supplement to the COGs is available, in which proteins encoded in the genomes of two multicellular eukaryotes, the nematode Caenorhabditis elegans and the fruit fly Drosophila melanogaster, and shared with bacteria and/or archaea were included. The new features added to the COG database include information pages with structural and functional details on each COG and literature references, improvements of the COGNITOR program that is used to fit new proteins into the COGs, and classification of genomes and COGs constructed by using principal component analysis.

MeSH Terms

Animals Archaea/genetics Bacteria/genetics Caenorhabditis elegans/genetics Databases, Factual Drosophila melanogaster/genetics Genome Information Storage and Retrieval Internet Phylogeny Proteins/classification,genetics Saccharomyces cerevisiae/genetics Sequence Alignment

Chemicals

Proteins

Authors & Affiliations

10 authors, click to expand affiliations / ORCID

Tatusov R L

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

Natale D A

Garkavtsev I V

Tatusova T A

Shankavaram U T

Rao B S

Kiryutin B

Galperin M Y

Fedorova N D

Koonin E V

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11 references, click to expand

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Article Info

Journal

Nucleic acids research

Abbr.

Nucleic Acids Res

ISSN

1362-4962

DOI

10.1093/nar/29.1.22

Published

2001-01-01

Pages

22-8

Language

English

Region

England

NLM ID

0411011

PMCID

PMC29819

Subset

External Links

PubMed source DOI: 10.1093/nar/29.1.22 PMC Full Text View journal details

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