Dataset Open Access

Homologous membrane protein structures (HOMEP) dataset version v2

Forrest, Lucy Rachel; Stamm, Marcus; Staritzbichler, René; Khafizov, Kamil

Protein structures from the dataset of Homologous MEmbrane Protein structures (HOMEP) version v2 created in 2010, published in 2013. A more automated version of HOMEP v1: 10.5281/zenodo.2646534
 

Table 1 = List of protein databank structure entries
From Stamm et al, PLOS One 2013, https://www.ncbi.nlm.nih.gov/pubmed/23469223, Supplementary Table 1, with the following entries:
Family grouping, Protein databank identifier, Name, Source organism, Resolution (Å)

 

Table 2 = List of pairs of structures
From Stamm et al, PLOS One 2013, https://www.ncbi.nlm.nih.gov/pubmed/23469223, Supplementary Table 2, with the following entries:
Family grouping, PDB code for first structure, Chain ID from PDB1, PDB for second structure, Chain ID from PDB2, protein structural difference (PSD), % sequence identity

 

File S2 HOMEP2 Dataset.tar.gz = Protein databank format files (PDB) are attached in the Dataset tar zipped file, organized by family. From Stamm et al, PLOS One 2013, https://www.ncbi.nlm.nih.gov/pubmed/23469223, Supplementary dataset.

Funded by the Max Planck Gesellschaft and the German Research Foundation (DFG; www.dfg.de/en) Collaborative Research Center 807 "Transport and Communication across Biological Membranes".
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File S2 HOMEP2 Dataset.tar.gz
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HOMEP_v2_Table1_List.csv
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HOMEP_v2_Table2_Pairs.csv
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  • Stamm M, Staritzbichler R, Khafizov K, Forrest LR. Alignment of helical membrane protein sequences using AlignMe. PLoS One. 2013;8(3):e57731. doi: 10.1371/journal.pone.0057731. Epub 2013 Mar 4. PubMed PMID: 23469223; PubMed Central PMCID: PMC3587630

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