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PDB_TM: selection and membrane localization of transmembrane proteins in the protein data bank.

ABSTRACT: PDB_TM is a database for transmembrane proteins with known structures. It aims to collect all transmembrane proteins that are deposited in the protein structure database (PDB) and to determine their membrane-spanning regions. These assignments are based on the TMDET algorithm, which uses only structural information to locate the most likely position of the lipid bilayer and to distinguish between transmembrane and globular proteins. This algorithm was applied to all PDB entries and the results were collected in the PDB_TM database. By using TMDET algorithm, the PDB_TM database can be automatically updated every week, keeping it synchronized with the latest PDB updates. The PDB_TM database is available at http://www.enzim.hu/PDB_TM.

SUBMITTER: Tusnady GE

PROVIDER: S-EPMC539956 | biostudies-literature | 2005 Jan

REPOSITORIES: biostudies-literature

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PDB_TM: selection and membrane localization of transmembrane proteins in the protein data bank.

Tusnády Gábor E GE Dosztányi Zsuzsanna Z Simon István I

Nucleic acids research 20050101 Database issue

PDB_TM is a database for transmembrane proteins with known structures. It aims to collect all transmembrane proteins that are deposited in the protein structure database (PDB) and to determine their membrane-spanning regions. These assignments are based on the TMDET algorithm, which uses only structural information to locate the most likely position of the lipid bilayer and to distinguish between transmembrane and globular proteins. This algorithm was applied to all PDB entries and the results w ...[more]

PMID: 15608195

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