Dataset Open Access

Homologous membrane protein structures (HOMEP) version 3

Forrest, Lucy Rachel; Stamm, Marcus

Homologous membrane protein structures (HOMEP) version 3 (created 2013)
An updated version of v2 10.5281/zenodo.2646539 and v1: 10.5281/zenodo.2646534

Table 1 = Alpha-helical membrane protein structures in the HOMEP3 data set (2013), listed by family
From Stamm M, Forrest LR, Proteins 2015 (Supplementary Table 1): https://www.ncbi.nlm.nih.gov/pubmed/26178143 

Contains the following columns:
Protein family, Protein databank identifier, Chain identifier, Name, Source organism, Resolution (Å)

 

Table 2 = Beta-barrel membrane protein structures in the HOMEP3 data set (2013), listed by family
From Stamm M, Forrest LR, Proteins 2015 (Supplementary Table 2)

Contains the following columns:
Protein family, Protein databank identifier, Chain identifier, Name, Source organism, Resolution (Å)

 

HOMEP3_pairs_alpha.txt
List of all pairs of protein structure chains of alpha-helical proteins

 

HOMEP3_pairs_beta.txt
List of all pairs of protein structure chains of beta-barrel proteins

 

HOMEP3_pdbs.tar.gz
All pdb files for individual chains in both alpha-helical and beta-barrel subsets

This work was supported by German Research Foundation (DFG) Collaborative Research Center Grant Number: SFB 807 "Transport and Communication across Biological Membranes" and Transport Across Membranes (TRAM) Graduate School; Max Planck Society and the Intramural Research Program of the National Institute of Neurological Disorders and Stroke at the National Institutes of Health, USA.
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HOMEP3_pairs_alpha.txt
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HOMEP3_pairs_beta.txt
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HOMEP3_pdbs.tar.gz
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HOMEP_v3_Table1_List-Alpha.csv
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HOMEP_v3_Table2_List-Beta.csv
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  • Stamm M, Forrest LR. Structure alignment of membrane proteins: Accuracy of available tools and a consensus strategy. Proteins. 2015 Sep;83(9):1720-32. doi: 10.1002/prot.24857. Epub 2015 Aug 1. Erratum in: Proteins. 2016 Sep;84(9):1333. PubMed PMID: 26178143; PubMed Central PMCID: PMC4545697.

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