TMPDB: a database of experimentally-characterized transmembrane topologies

被引：80

作者：

Ikeda, M

Arai, M

Okuno, T

Shimizu, T ^{[1
]}

机构：

[1] Hirosaki Univ, Fac Sci & Technol, Dept Elect Informat Syst Engn, Hirosaki, Aomori, Japan

[2] Iwate Univ, United Grad Sch Agr Sci, Sci Bioresources Program, Morioka, Iwate 0208550, Japan

来源：

NUCLEIC ACIDS RESEARCH | 2003年 / 31卷 / 01期

关键词：

D O I：

10.1093/nar/gkg020

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

TMPDB is a database of experimentally-characterized transmembrane ( TM) topologies. TMPDB release 6.2 contains a total of 302 TM protein sequences, in which 276 are alpha-helical sequences, 17 beta-stranded, and 9 alpha-helical sequences with short pore-forming helices buried in the membrane. The TM topologies in TMPDB were determined experimentally by means of X-ray crystallography, NMR, gene fusion technique, substituted cysteine accessibility method, N-linked glycosylation experiment and other biochemical methods. TMPDB would be useful as a test and/or training dataset in improving the proposed TM topology prediction methods or developing novel methods with higher performance, and as a guide for both the bioinformaticians and biologists to better understand TM proteins. TMPDB and its subsets are freely available at the following web site: http: / / bioinfo.si. hirosaki- u. ac. jp/similar toTMPDB/.

引用

页码：406 / 409

页数：4

共 34 条

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