MeTaDoR

a comprehensive resource for membrane targeting domains and their host proteins.

Nitin Bhardwaj, Robert Stahelin, Guijun Zhao, Wonhwa Cho, Hui Lu

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

MOTIVATION: Protein-lipid interactions play a central role in cellular signaling and membrane trafficking and at the core of these interactions are domains specialized in lipid binding and membrane targeting. Considering the importance of these domains, we have created MeTaDoR, a comprehensive resource dedicated to membrane targeting domains (MTDs). RESULT: MeTaDoR begins with a brief introduction about all the important MTDs including their subcellular localization and structural features. Sequences of all known MTDs are then provided in two formats: standard Prosite format and a parsed tab-delimited format that provides a manually curated classification into binding or non-binding. Structures of all MTDs and host proteins known so far are provided with links to PDB and Pfam databases. Membrane-binding orientation of these proteins, whether experimentally determined or proposed, is also provided with links to the appropriate literature. To facilitate molecular dynamics studies of these proteins, the force-field parameters for many non-standard lipids that commonly interact with these proteins are also provided. Finally, an online server for predicting membrane-binding proteins and a search function with various search fields are included. The resource is publicly available and will be updated on a regular basis.

Original languageEnglish (US)
Pages (from-to)3110-3112
Number of pages3
JournalBioinformatics
Volume23
Issue number22
DOIs
StatePublished - Nov 15 2007
Externally publishedYes

Fingerprint

Membrane
Proteins
Membranes
Protein
Resources
Lipids
Carrier Proteins
Molecular Dynamics Simulation
Membrane Lipids
Cell signaling
Membrane Proteins
Force Field
Interaction
Molecular Dynamics
Databases
Molecular dynamics
Servers
Server

ASJC Scopus subject areas

  • Medicine(all)

Cite this

MeTaDoR : a comprehensive resource for membrane targeting domains and their host proteins. / Bhardwaj, Nitin; Stahelin, Robert; Zhao, Guijun; Cho, Wonhwa; Lu, Hui.

In: Bioinformatics, Vol. 23, No. 22, 15.11.2007, p. 3110-3112.

Research output: Contribution to journalArticle

Bhardwaj, Nitin ; Stahelin, Robert ; Zhao, Guijun ; Cho, Wonhwa ; Lu, Hui. / MeTaDoR : a comprehensive resource for membrane targeting domains and their host proteins. In: Bioinformatics. 2007 ; Vol. 23, No. 22. pp. 3110-3112.
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