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3did: identification and classification of domain-based interactions of known three-dimensional structure.

作者信息

Stein Amelie, Céol Arnaud, Aloy Patrick

机构信息

Institute for Research in Biomedicine, Join IRB-BSC Program in Computational Biology, 08028 Barcelona, Spain.

出版信息

Nucleic Acids Res. 2011 Jan;39(Database issue):D718-23. doi: 10.1093/nar/gkq962. Epub 2010 Oct 21.

DOI:10.1093/nar/gkq962
PMID:20965963
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC3013799/
Abstract

The database of three-dimensional interacting domains (3did) is a collection of protein interactions for which high-resolution three-dimensional structures are known. 3did exploits the availability of structural data to provide molecular details on interactions between two globular domains as well as novel domain-peptide interactions, derived using a recently published method from our lab. The interface residues are presented for each interaction type individually, plus global domain interfaces at which one or more partners (domains or peptides) bind. The 3did web server at http://3did.irbbarcelona.org visualizes these interfaces along with atomic details of individual interactions using Jmol. The complete contents are also available for download.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f6b1/3013799/c03ad5436bde/gkq962f4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f6b1/3013799/79c9828806d4/gkq962f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f6b1/3013799/f8e838a68127/gkq962f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f6b1/3013799/7ccc3ed05f35/gkq962f3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f6b1/3013799/c03ad5436bde/gkq962f4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f6b1/3013799/79c9828806d4/gkq962f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f6b1/3013799/f8e838a68127/gkq962f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f6b1/3013799/7ccc3ed05f35/gkq962f3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f6b1/3013799/c03ad5436bde/gkq962f4.jpg

相似文献

[1]
3did: identification and classification of domain-based interactions of known three-dimensional structure.

Nucleic Acids Res. 2011-1

[2]
3did Update: domain-domain and peptide-mediated interactions of known 3D structure.

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[3]
3did: a catalog of domain-based interactions of known three-dimensional structure.

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[4]
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[5]
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[6]
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[7]
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[8]
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[9]
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[10]
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引用本文的文献

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[2]
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[3]
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[4]
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Sci Rep. 2018-10-4

[5]
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Microbiome. 2017-8-10

[6]
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EURASIP J Bioinform Syst Biol. 2016-10-22

[7]
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[8]
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[9]
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[10]
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本文引用的文献

[1]
Novel peptide-mediated interactions derived from high-resolution 3-dimensional structures.

PLoS Comput Biol. 2010-5-20

[2]
The structural basis of peptide-protein binding strategies.

Structure. 2010-2-10

[3]
The Pfam protein families database.

Nucleic Acids Res. 2009-11-17

[4]
ELM: the status of the 2010 eukaryotic linear motif resource.

Nucleic Acids Res. 2009-11-17

[5]
PepX: a structural database of non-redundant protein-peptide complexes.

Nucleic Acids Res. 2009-10-30

[6]
Dynamic interactions of proteins in complex networks: a more structured view.

FEBS J. 2009-10

[7]
ADAN: a database for prediction of protein-protein interaction of modular domains mediated by linear motifs.

Bioinformatics. 2009-7-14

[8]
3did Update: domain-domain and peptide-mediated interactions of known 3D structure.

Nucleic Acids Res. 2009-1

[9]
Contextual specificity in peptide-mediated protein interactions.

PLoS One. 2008-7-2

[10]
Analyzing protein interaction networks using structural information.

Annu Rev Biochem. 2008

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