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Nucleic Acids Res. 2017 Jan 4;45(D1):D250-D255. doi: 10.1093/nar/gkw712. Epub 2016 Aug 10.

Membranome: a database for proteome-wide analysis of single-pass membrane proteins.

Author information

1
Department of Medicinal Chemistry, College of Pharmacy, University of Michigan, Ann Arbor, MI 48109-1065, USA almz@umich.edu.
2
St. Anthony Hospital, Oklahoma City, OK 73102, USA.
3
Department of Computational Science and Engineering, University of Michigan, Ann Arbor, MI 48109-1065, USA.
4
Department of Medicinal Chemistry, College of Pharmacy, University of Michigan, Ann Arbor, MI 48109-1065, USA.

Abstract

The Membranome database was developed to assist analysis and computational modeling of single-pass (bitopic) transmembrane (TM) proteins and their complexes by providing structural information about these proteins on a genomic scale. The database currently collects data on >6000 bitopic proteins from Homo sapiens, Arabidopsis thaliana, Dictyostelium discoideum, Saccharomyces cerevisiae, Escherichia coli and Methanocaldococcus jannaschii It presents the following data: (i) hierarchical classification of bitopic proteins into 15 functional classes, 689 structural superfamilies and 1404 families; (ii) 446 complexes of bitopic proteins with known three-dimensional (3D) structures classified into 129 families; (iii) computationally generated three-dimensional models of TM α-helices positioned in membranes; (iv) amino acid sequences, domain architecture, functional annotation and available experimental structures of bitopic proteins; (v) TM topology and intracellular localization, (vi) physical interactions between proteins from the database along with links to other resources. The database is freely accessible at http://membranome.org There is a variety of options for browsing, sorting, searching and retrieval of the content, including downloadable coordinate files of TM domains with calculated membrane boundaries.

PMID:
27510400
PMCID:
PMC5210604
DOI:
10.1093/nar/gkw712
[Indexed for MEDLINE]
Free PMC Article

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