PDZBase: A protein-protein interaction database for PDZ-domains

Thijs Beuming; Lucy Skrabanek; Masha Y. Niv; Piali Mukherjee; Harel Weinstein

doi:10.1093/bioinformatics/bti098

PDZBase: A protein-protein interaction database for PDZ-domains

Thijs Beuming
, Lucy Skrabanek
, Masha Y. Niv
, Piali Mukherjee
, Harel Weinstein^*

^*Corresponding author for this work

Research output: Contribution to journal › Comment/debate

175 Scopus citations

Abstract

Summary: PDZBase is a database that aims to contain all known PDZ-domain-mediated protein-protein interactions. Currently, PDZ-Base contains approximately 300 such interactions, which have been manually extracted from >200 articles. The database can be queried through both sequence motif and keyword-based searches, and the sequences of interacting proteins can be visually inspected through alignments (for the comparison of several interactions), or as residue-based diagrams including schematic secondary structure information (for individual complexes).

Original language	English
Pages (from-to)	827-828
Number of pages	2
Journal	Bioinformatics
Volume	21
Issue number	6
DOIs	https://doi.org/10.1093/bioinformatics/bti098
State	Published - 15 Mar 2005
Externally published	Yes

Bibliographical note

Funding Information:
We thank Dr Nathalie Basdevant for curating part of the interactions. The work is supported by NIH grants K05 DA00060, P01 DA124080 and P01 DA12923.

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10.1093/bioinformatics/bti098

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title = "PDZBase: A protein-protein interaction database for PDZ-domains",

abstract = "Summary: PDZBase is a database that aims to contain all known PDZ-domain-mediated protein-protein interactions. Currently, PDZ-Base contains approximately 300 such interactions, which have been manually extracted from >200 articles. The database can be queried through both sequence motif and keyword-based searches, and the sequences of interacting proteins can be visually inspected through alignments (for the comparison of several interactions), or as residue-based diagrams including schematic secondary structure information (for individual complexes).",

author = "Thijs Beuming and Lucy Skrabanek and Niv, \{Masha Y.\} and Piali Mukherjee and Harel Weinstein",

note = "Funding Information: We thank Dr Nathalie Basdevant for curating part of the interactions. The work is supported by NIH grants K05 DA00060, P01 DA124080 and P01 DA12923.",

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doi = "10.1093/bioinformatics/bti098",

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AU - Beuming, Thijs

AU - Skrabanek, Lucy

AU - Niv, Masha Y.

AU - Mukherjee, Piali

AU - Weinstein, Harel

N1 - Funding Information: We thank Dr Nathalie Basdevant for curating part of the interactions. The work is supported by NIH grants K05 DA00060, P01 DA124080 and P01 DA12923.

PY - 2005/3/15

Y1 - 2005/3/15

N2 - Summary: PDZBase is a database that aims to contain all known PDZ-domain-mediated protein-protein interactions. Currently, PDZ-Base contains approximately 300 such interactions, which have been manually extracted from >200 articles. The database can be queried through both sequence motif and keyword-based searches, and the sequences of interacting proteins can be visually inspected through alignments (for the comparison of several interactions), or as residue-based diagrams including schematic secondary structure information (for individual complexes).

AB - Summary: PDZBase is a database that aims to contain all known PDZ-domain-mediated protein-protein interactions. Currently, PDZ-Base contains approximately 300 such interactions, which have been manually extracted from >200 articles. The database can be queried through both sequence motif and keyword-based searches, and the sequences of interacting proteins can be visually inspected through alignments (for the comparison of several interactions), or as residue-based diagrams including schematic secondary structure information (for individual complexes).

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PDZBase: A protein-protein interaction database for PDZ-domains

Abstract

Bibliographical note

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