Dataset Open Access

Homologous membrane protein structures (HOMEP) version 1

Forrest, Lucy Rachel; Tang, Chris L; Honig, Barry

Table 1 = List of membrane protein structures in the HOMEP data set (version 1).
From Forrest, Tang & Honig 2006 Biophysical Journal (Supplementary Table 1)
https://www.ncbi.nlm.nih.gov/pubmed/16648166

Contains the following columns:
PDB-Code Protein-Name    Source  Res-(Å) Length (Num-TM) Number-of-TM-domains    Family

Table 2 = List of pairs of membrane protein structures in the HOMEP data set (version 1).
From Forrest, Tang & Honig 2006 Biophysical Journal (Supplementary Table 2)

Contains the following columns:
Model   Family  Query   Template   ID(%)  RMS(Å) GDT_TS(%)  TM-ID(%)   TM-RMS(Å)  TM GDT_TS(%)

Table 3 = Manually-defined transmembrane regions in the HOMEP data set (version 1), listed for each family by transmembrane segment number. From Forrest, Tang & Honig 2006 Biophysical Journal (Supplementary Table 3).

Contains the columns defined as follows:
Protein chain identifier, start (-s) and end (-e) residues for each PDB structure in the family

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HOMEP_v1_Table1_List.csv
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HOMEP_v1_Table2_Pairs.csv
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HOMEP_v1_Table3_TM.csv
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  • Forrest LR, Tang CL, Honig B. On the accuracy of homology modeling and sequence alignment methods applied to membrane proteins. Biophys J. 2006 Jul 15;91(2):508-17. Epub 2006 Apr 28

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