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PDB_TM: selection and membrane localization of transmembrane proteins in the protein data bank
Open accessAbstract
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.
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Kabsch, W., & Sander, C. (1983) · Biopolymers · doi:10.1002/bip.360221211 · Cited by 15,320
Cited by
Viklund, H., & Elofsson, A. (2008) · Bioinformatics · doi:10.1093/bioinformatics/btn221 · Cited by 382
Coarse-Grained MD Simulations of Membrane Protein-Bilayer Self-Assembly
Scott, K. A., Bond, P. J., Ivetac, A., Chetwynd, A. P., Khalid, S., & Sansom, M. S. P. (2008) · Structure · doi:10.1016/j.str.2008.01.014 · Cited by 207
Structural Symmetry in Membrane Proteins
Forrest, L. R. (2015) · Annual Review of Biophysics · doi:10.1146/annurev-biophys-051013-023008 · Cited by 148
Presence and utility of intrinsically disordered regions in kinases
Kathiriya, J. J., Pathak, R. R., Clayman, E., Xue, B., Uversky, V. N., & Davé, V. (2014) · Molecular BioSystems · doi:10.1039/c4mb00224e · Cited by 30
Metadata
- Authors
- Tusnady, G. E.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2004-12-17
- Volume
- 33
- Issue
- Database issue
- Pages
- D275-D278
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2056402029
- Cited by
- 274
- References
- 1
- FWCI
- 2.73
- Type
- journal article
- Language
- en
- Open access
- hybrid
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