PreBI: Prediction of biological interfaces of proteins in crystals

Yuko Tsuchiya, Kengo Kinoshita, Nobutoshi Ito, Haruki Nakamura

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

PreBI is a server that predicts biological interfaces in protein crystal structures, according to the complementarity and the area of the interface. The server accepts a coordinate file in the PDB format, and all of the possible interfaces are generated automatically, according to the symmetry operations given in the coordinate file. For all of the interfaces generated, the complementarities of the electrostatic potential, hydrophobicity and shape of the interfaces are analyzed, and the most probable biological interface is identified according to the combination of the degree of complementarity derived from the database analyses and the area of the interface. The results can be checked through an interactive viewer, and the most probable complex can be downloaded as atomic coordinates in the PDB format. PreBI is available at http://pre-s.protein.osaka-u.ac.jp/~prebi/.

Original languageEnglish
Pages (from-to)W320-W324
JournalNucleic acids research
Volume34
Issue numberWEB. SERV. ISS.
DOIs
Publication statusPublished - 2006 Jul 1
Externally publishedYes

ASJC Scopus subject areas

  • Genetics

Fingerprint Dive into the research topics of 'PreBI: Prediction of biological interfaces of proteins in crystals'. Together they form a unique fingerprint.

  • Cite this