HippDB: A database of readily targeted helical protein-protein interactions

Christina M. Bergey; Andrew M. Watkins; Paramjit S. Arora

doi:10.1093/bioinformatics/btt483

HippDB: A database of readily targeted helical protein-protein interactions

Christina M. Bergey, Andrew M. Watkins, Paramjit S. Arora

Chemistry

Research output: Contribution to journal › Article › peer-review

Abstract

Summary: HippDB catalogs every protein-protein interaction whose structure is available in the Protein Data Bank and which exhibits one or more helices at the interface. The Web site accepts queries on variables such as helix length and sequence, and it provides computational alanine scanning and change in solvent-accessible surface area values for every interfacial residue. HippDB is intended to serve as a starting point for structure-based small molecule and peptidomimetic drug development. Availability and implementation: HippDB is freely available on the web at http://www.nyu.edu/projects/arora/hippdb. The Web site is implemented in PHP, MySQL and Apache. Source code freely available for download at http://code.google.com/p/helidb, implemented in Perl and supported on Linux.

Original language	English (US)
Pages (from-to)	2806-2807
Number of pages	2
Journal	Bioinformatics
Volume	29
Issue number	21
DOIs	https://doi.org/10.1093/bioinformatics/btt483
State	Published - Nov 1 2013

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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10.1093/bioinformatics/btt483

Cite this

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title = "HippDB: A database of readily targeted helical protein-protein interactions",

abstract = "Summary: HippDB catalogs every protein-protein interaction whose structure is available in the Protein Data Bank and which exhibits one or more helices at the interface. The Web site accepts queries on variables such as helix length and sequence, and it provides computational alanine scanning and change in solvent-accessible surface area values for every interfacial residue. HippDB is intended to serve as a starting point for structure-based small molecule and peptidomimetic drug development. Availability and implementation: HippDB is freely available on the web at http://www.nyu.edu/projects/arora/hippdb. The Web site is implemented in PHP, MySQL and Apache. Source code freely available for download at http://code.google.com/p/helidb, implemented in Perl and supported on Linux.",

author = "Bergey, {Christina M.} and Watkins, {Andrew M.} and Arora, {Paramjit S.}",

note = "Funding Information: Funding: This work was supported by the National Institutes of Health [R01 GM073943]. A.M.W. thanks the NYU Chemistry Department for a Kramer Fellowship. C.M.B. thanks the National Science Foundation for a Graduate Research Fellowship.",

year = "2013",

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doi = "10.1093/bioinformatics/btt483",

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AU - Watkins, Andrew M.

AU - Arora, Paramjit S.

N1 - Funding Information: Funding: This work was supported by the National Institutes of Health [R01 GM073943]. A.M.W. thanks the NYU Chemistry Department for a Kramer Fellowship. C.M.B. thanks the National Science Foundation for a Graduate Research Fellowship.

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N2 - Summary: HippDB catalogs every protein-protein interaction whose structure is available in the Protein Data Bank and which exhibits one or more helices at the interface. The Web site accepts queries on variables such as helix length and sequence, and it provides computational alanine scanning and change in solvent-accessible surface area values for every interfacial residue. HippDB is intended to serve as a starting point for structure-based small molecule and peptidomimetic drug development. Availability and implementation: HippDB is freely available on the web at http://www.nyu.edu/projects/arora/hippdb. The Web site is implemented in PHP, MySQL and Apache. Source code freely available for download at http://code.google.com/p/helidb, implemented in Perl and supported on Linux.

AB - Summary: HippDB catalogs every protein-protein interaction whose structure is available in the Protein Data Bank and which exhibits one or more helices at the interface. The Web site accepts queries on variables such as helix length and sequence, and it provides computational alanine scanning and change in solvent-accessible surface area values for every interfacial residue. HippDB is intended to serve as a starting point for structure-based small molecule and peptidomimetic drug development. Availability and implementation: HippDB is freely available on the web at http://www.nyu.edu/projects/arora/hippdb. The Web site is implemented in PHP, MySQL and Apache. Source code freely available for download at http://code.google.com/p/helidb, implemented in Perl and supported on Linux.

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HippDB: A database of readily targeted helical protein-protein interactions

Abstract

ASJC Scopus subject areas

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