PSIbase: a database of Protein Structural Interactome map (PSIMAP)

  • Authors:

  • Sungsam Gong;Giseok Yoon;Insoo Jang;Dan Bolser;Panos Dafas;Michael Schroeder;Hansol Choi;Yoobok Cho;Kyungsook Han;Sunghoon Lee;Hwanho Choi;Michael Lappe;Liisa Holm;Sangsoo Kim;Donghoon Oh;Jonghwa Bhak

  • Affiliations:

  • Biomatics Lab, Department of BioSystems, KAIST Daejeon, Korea;OITEK Daejeon, Korea;NGIC, KRIBB Daejeon, Korea;MRC-DUNN Cambridge, UK;City University London, UK;Biotechnologisches Zentrum TU Dresden, Germany;Biomatics Lab, Department of BioSystems, KAIST Daejeon, Korea;OITEK Daejeon, Korea;Inha University Incheon, Korea;NGIC, KRIBB Daejeon, Korea;Biomatics Lab, Department of BioSystems, KAIST Daejeon, Korea;Max Planck Institute for Molecular Genetics Berlin, Germany;Helsinki University Finland;NGIC, KRIBB Daejeon, Korea;OITEK Daejeon, Korea;Biomatics Lab, Department of BioSystems, KAIST Daejeon, Korea

  • Venue:
  • Bioinformatics
  • Year:
  • 2005

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Abstract

Summary: Protein Structural Interactome map (PSIMAP) is a global interaction map that describes domain--domain and protein--protein interaction information for known Protein Data Bank structures. It calculates the Euclidean distance to determine interactions between possible pairs of structural domains in proteins. PSIbase is a database and file server for protein structural interaction information calculated by the PSIMAP algorithm. PSIbase also provides an easy-to-use protein domain assignment module, interaction navigation and visual tools. Users can retrieve possible interaction partners of their proteins of interests if a significant homology assignment is made with their query sequences. Availability:http://psimap.org and http://psibase.kaist.ac.kr/ Contact: biopark@kaist.ac.kr Supplementary information: Supplementary material is available at http://psibase.kaist.ac.kr/Doc/supplementary_material.htm