PoSSuM v.2.0: Data update and a new function for investigating ligand analogs and target proteins of small-molecule drugs

Jun Ichi Ito, Kazuyoshi Ikeda, Kazunori Yamada, Kenji Mizuguchi, Kentaro Tomii

Research output: Contribution to journalArticlepeer-review

14 Citations (Scopus)

Abstract

PoSSuM (http://possum.cbrc.jp/PoSSuM/) is a database for detecting similar small-molecule binding sites on proteins. Since its initial release in 2011, PoSSuM has grown to provide information related to 49 million pairs of similar binding sites discovered among 5.5 million known and putative binding sites. This enlargement of the database is expected to enhance opportunities for biological and pharmaceutical applications, such as predictions of new functions and drug discovery. In this release, we have provided a new service named PoSSuM drug search (PoSSuMds) at http://possum.cbrc.jp/PoSSuM/drug search/, in which we selected 194 approved drug compounds retrieved from ChEMBL, and detected their known binding pockets and pockets that are similar to them. Users can access and download all of the search results via a new web interface, which is useful for finding ligand analogs as well as potential target proteins. Furthermore, PoSSuMds enables users to explore the binding pocket universe within PoSSuM. Additionally, we have improved the web interface with new functions, including sortable tables and a viewer for visualizing and downloading superimposed pockets.

Original languageEnglish
Pages (from-to)D392-D398
JournalNucleic acids research
Volume43
Issue numberD1
DOIs
Publication statusPublished - 2015 Jan 28
Externally publishedYes

ASJC Scopus subject areas

  • Genetics

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