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CDD: a Conserved Domain Database for the functional annotation of proteins
NCBI’s Conserved Domain Database (CDD) is a resource for the annotation of protein sequences with the location of conserved domain footprints, and functional sites inferred from these footprints. CDD includes manually curated domain models that make use of protein 3D structure to refine domain model...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , |
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Formato: | Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2011
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013737/ https://www.ncbi.nlm.nih.gov/pubmed/21109532 http://dx.doi.org/10.1093/nar/gkq1189 |
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author | Marchler-Bauer, Aron Lu, Shennan Anderson, John B. Chitsaz, Farideh Derbyshire, Myra K. DeWeese-Scott, Carol Fong, Jessica H. Geer, Lewis Y. Geer, Renata C. Gonzales, Noreen R. Gwadz, Marc Hurwitz, David I. Jackson, John D. Ke, Zhaoxi Lanczycki, Christopher J. Lu, Fu Marchler, Gabriele H. Mullokandov, Mikhail Omelchenko, Marina V. Robertson, Cynthia L. Song, James S. Thanki, Narmada Yamashita, Roxanne A. Zhang, Dachuan Zhang, Naigong Zheng, Chanjuan Bryant, Stephen H. |
author_facet | Marchler-Bauer, Aron Lu, Shennan Anderson, John B. Chitsaz, Farideh Derbyshire, Myra K. DeWeese-Scott, Carol Fong, Jessica H. Geer, Lewis Y. Geer, Renata C. Gonzales, Noreen R. Gwadz, Marc Hurwitz, David I. Jackson, John D. Ke, Zhaoxi Lanczycki, Christopher J. Lu, Fu Marchler, Gabriele H. Mullokandov, Mikhail Omelchenko, Marina V. Robertson, Cynthia L. Song, James S. Thanki, Narmada Yamashita, Roxanne A. Zhang, Dachuan Zhang, Naigong Zheng, Chanjuan Bryant, Stephen H. |
author_sort | Marchler-Bauer, Aron |
collection | PubMed |
description | NCBI’s Conserved Domain Database (CDD) is a resource for the annotation of protein sequences with the location of conserved domain footprints, and functional sites inferred from these footprints. CDD includes manually curated domain models that make use of protein 3D structure to refine domain models and provide insights into sequence/structure/function relationships. Manually curated models are organized hierarchically if they describe domain families that are clearly related by common descent. As CDD also imports domain family models from a variety of external sources, it is a partially redundant collection. To simplify protein annotation, redundant models and models describing homologous families are clustered into superfamilies. By default, domain footprints are annotated with the corresponding superfamily designation, on top of which specific annotation may indicate high-confidence assignment of family membership. Pre-computed domain annotation is available for proteins in the Entrez/Protein dataset, and a novel interface, Batch CD-Search, allows the computation and download of annotation for large sets of protein queries. CDD can be accessed via http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml. |
format | Text |
id | pubmed-3013737 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2011 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-30137372011-01-03 CDD: a Conserved Domain Database for the functional annotation of proteins Marchler-Bauer, Aron Lu, Shennan Anderson, John B. Chitsaz, Farideh Derbyshire, Myra K. DeWeese-Scott, Carol Fong, Jessica H. Geer, Lewis Y. Geer, Renata C. Gonzales, Noreen R. Gwadz, Marc Hurwitz, David I. Jackson, John D. Ke, Zhaoxi Lanczycki, Christopher J. Lu, Fu Marchler, Gabriele H. Mullokandov, Mikhail Omelchenko, Marina V. Robertson, Cynthia L. Song, James S. Thanki, Narmada Yamashita, Roxanne A. Zhang, Dachuan Zhang, Naigong Zheng, Chanjuan Bryant, Stephen H. Nucleic Acids Res Articles NCBI’s Conserved Domain Database (CDD) is a resource for the annotation of protein sequences with the location of conserved domain footprints, and functional sites inferred from these footprints. CDD includes manually curated domain models that make use of protein 3D structure to refine domain models and provide insights into sequence/structure/function relationships. Manually curated models are organized hierarchically if they describe domain families that are clearly related by common descent. As CDD also imports domain family models from a variety of external sources, it is a partially redundant collection. To simplify protein annotation, redundant models and models describing homologous families are clustered into superfamilies. By default, domain footprints are annotated with the corresponding superfamily designation, on top of which specific annotation may indicate high-confidence assignment of family membership. Pre-computed domain annotation is available for proteins in the Entrez/Protein dataset, and a novel interface, Batch CD-Search, allows the computation and download of annotation for large sets of protein queries. CDD can be accessed via http://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml. Oxford University Press 2011-01 2010-11-24 /pmc/articles/PMC3013737/ /pubmed/21109532 http://dx.doi.org/10.1093/nar/gkq1189 Text en © The Author(s) 2010. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Articles Marchler-Bauer, Aron Lu, Shennan Anderson, John B. Chitsaz, Farideh Derbyshire, Myra K. DeWeese-Scott, Carol Fong, Jessica H. Geer, Lewis Y. Geer, Renata C. Gonzales, Noreen R. Gwadz, Marc Hurwitz, David I. Jackson, John D. Ke, Zhaoxi Lanczycki, Christopher J. Lu, Fu Marchler, Gabriele H. Mullokandov, Mikhail Omelchenko, Marina V. Robertson, Cynthia L. Song, James S. Thanki, Narmada Yamashita, Roxanne A. Zhang, Dachuan Zhang, Naigong Zheng, Chanjuan Bryant, Stephen H. CDD: a Conserved Domain Database for the functional annotation of proteins |
title | CDD: a Conserved Domain Database for the functional annotation of proteins |
title_full | CDD: a Conserved Domain Database for the functional annotation of proteins |
title_fullStr | CDD: a Conserved Domain Database for the functional annotation of proteins |
title_full_unstemmed | CDD: a Conserved Domain Database for the functional annotation of proteins |
title_short | CDD: a Conserved Domain Database for the functional annotation of proteins |
title_sort | cdd: a conserved domain database for the functional annotation of proteins |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013737/ https://www.ncbi.nlm.nih.gov/pubmed/21109532 http://dx.doi.org/10.1093/nar/gkq1189 |
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