CD-Search: protein domain annotations on the fly.

Nucleic acids research ·Vol. 32 ·No. Web Server issue ·2004-07-01 ·Pages W327-31

Marchler-Bauer A, Bryant SH

Abstract

We describe the Conserved Domain Search service (CD-Search), a web-based tool for the detection of structural and functional domains in protein sequences. CD-Search uses BLAST(R) heuristics to provide a fast, interactive service, and searches a comprehensive collection of domain models. Search results are displayed as domain architecture cartoons and pairwise alignments between the query and domain-model consensus sequences. Search results may be visualized in further detail by embedding the query sequence into multiple alignment displays and by mapping onto three-dimensional molecular graphic displays of known structures within the domain family. CD-Search can be accessed at http://www.ncbi.nlm.nih.gov/Structure/cdd/wrpsb.cgi.

MeSH Terms

Amino Acid Sequence Computer Graphics Consensus Sequence Internet Protein Structure, Tertiary Proteins/chemistry Sequence Alignment Sequence Analysis, Protein Software Time Factors User-Computer Interface

Chemicals

Proteins

Authors & Affiliations

2 authors, click to expand affiliations / ORCID

Marchler-Bauer Aron

Computational Biology Branch, NCBI, National Library of Medicine, NIH, Building 38A, Room 5S508, 8600 Rockville Pike, Bethesda, MD 20894, USA. bauer@ncbi.nlm.nih.gov

Bryant Stephen H

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Article Info

Journal

Nucleic acids research

Abbr.

Nucleic Acids Res

ISSN

1362-4962

DOI

10.1093/nar/gkh454

bauer@ncbi.nlm.nih.gov

Published

2004-07-01

Pages

W327-31

Language

English

Region

England

NLM ID

0411011

PMCID

PMC441592

Subset

External Links

PubMed source DOI: 10.1093/nar/gkh454 PMC Full Text View journal details

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CD-Search: protein domain annotations on the fly.

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