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DOMINE: a database of protein domain interactions.

Raghavachari B, Tasneem A, Przytycka TM, Jothi R - Nucleic Acids Res. (2007)

Bottom Line: DOMINE contains a total of 20 513 unique domain-domain interactions among 4036 Pfam domains, out of which 4349 are inferred from PDB entries and 17 781 were predicted by at least one computational approach.This database will serve as a valuable resource to those working in the field of protein and domain interactions.DOMINE may not only serve as a reference to experimentalists who test for new protein and domain interactions, but also offers a consolidated dataset for analysis by bioinformaticians who seek to test ideas regarding the underlying factors that control the topological structure of interaction networks.

View Article: PubMed Central - PubMed

Affiliation: Department of Computer Science, University of Texas at Dallas, Richardson, TX 75083, USA.

ABSTRACT
DOMINE is a database of known and predicted protein domain interactions compiled from a variety of sources. The database contains domain-domain interactions observed in PDB entries, and those that were predicted by eight different computational approaches. DOMINE contains a total of 20 513 unique domain-domain interactions among 4036 Pfam domains, out of which 4349 are inferred from PDB entries and 17 781 were predicted by at least one computational approach. This database will serve as a valuable resource to those working in the field of protein and domain interactions. DOMINE may not only serve as a reference to experimentalists who test for new protein and domain interactions, but also offers a consolidated dataset for analysis by bioinformaticians who seek to test ideas regarding the underlying factors that control the topological structure of interaction networks. DOMINE is freely available at http://domine.utdallas.edu.

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Screen shot of query result for 14-3-3 domain.
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Related In: Results  -  Collection

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getmorefigures.php?uid=PMC2238965&req=5

Figure 3: Screen shot of query result for 14-3-3 domain.

Mentions: Clicking on a domain name (Pfam ID) from anywhere on the Web site displays interaction information, if available, for that domain (see Figure 3). For each interacting domain, the list of domains that it is known/predicted to interact with are displayed along with external links to the Pfam, Interpro and GO databases. For each predicted interaction, information on whether DOMINE considers it to be a high-, medium- or low-confidence prediction is provided in addition to the source(s) of evidence.Figure 3.


DOMINE: a database of protein domain interactions.

Raghavachari B, Tasneem A, Przytycka TM, Jothi R - Nucleic Acids Res. (2007)

Screen shot of query result for 14-3-3 domain.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC2238965&req=5

Figure 3: Screen shot of query result for 14-3-3 domain.
Mentions: Clicking on a domain name (Pfam ID) from anywhere on the Web site displays interaction information, if available, for that domain (see Figure 3). For each interacting domain, the list of domains that it is known/predicted to interact with are displayed along with external links to the Pfam, Interpro and GO databases. For each predicted interaction, information on whether DOMINE considers it to be a high-, medium- or low-confidence prediction is provided in addition to the source(s) of evidence.Figure 3.

Bottom Line: DOMINE contains a total of 20 513 unique domain-domain interactions among 4036 Pfam domains, out of which 4349 are inferred from PDB entries and 17 781 were predicted by at least one computational approach.This database will serve as a valuable resource to those working in the field of protein and domain interactions.DOMINE may not only serve as a reference to experimentalists who test for new protein and domain interactions, but also offers a consolidated dataset for analysis by bioinformaticians who seek to test ideas regarding the underlying factors that control the topological structure of interaction networks.

View Article: PubMed Central - PubMed

Affiliation: Department of Computer Science, University of Texas at Dallas, Richardson, TX 75083, USA.

ABSTRACT
DOMINE is a database of known and predicted protein domain interactions compiled from a variety of sources. The database contains domain-domain interactions observed in PDB entries, and those that were predicted by eight different computational approaches. DOMINE contains a total of 20 513 unique domain-domain interactions among 4036 Pfam domains, out of which 4349 are inferred from PDB entries and 17 781 were predicted by at least one computational approach. This database will serve as a valuable resource to those working in the field of protein and domain interactions. DOMINE may not only serve as a reference to experimentalists who test for new protein and domain interactions, but also offers a consolidated dataset for analysis by bioinformaticians who seek to test ideas regarding the underlying factors that control the topological structure of interaction networks. DOMINE is freely available at http://domine.utdallas.edu.

Show MeSH