About GPCR-SSFE 2.0
The GPCR-Sequence-Structure-Feature-Extractor (SSFE) web server and database provides template suggestions and homology models of Class A GPCRs. GPCR-SSFE 2.0 is based on our published workflow for identifying key sequence and structural motifs in Class A GPCRs which is used to guide template selection and build homology models. The methodology has recently been updated to include 27 template structures, uses a new fingerprint correlation scoring strategy and includes loop modelling.
Users can access the models stored in GPCR-SSFE 2.0 by either browsing the superfamily (subdivided into 10 families) or by searching for results using a UniProt identifier. Users can also enter a GPCR sequence of their choice for analysis by GPCR-SSFE 2.0. Results returned include the suggestion of which template(s) to use for modelling, sequence alignments and homology models of the query GPCR.
GPCR-SSFE 2.0 has been updated to include 33 template structures
As of December 2017, five new inactive structures have been added to our pool of templates: CCR2, CCR9, ADORA1, PAR2 and LPAR6. Template selection and modelling has been redone on 1011 GPCR sequences from human, mouse and rat.
Hybrid MM/CG Webserver
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Please cite the GPCR-SSFE 2.0 using the following reference:
Worth CL, Kreuchwig F, Tiemann JKS, Kreuchwig A, Ritschel M, Kleinau G, Hildebrand PW and Krause G GPCR-SSFE 2.0—a fragment-based molecular modeling web tool for Class A G-protein coupled receptors. Nucleic Acids Res., 2017 Jul 3;45(W1):W408-W415.
The following reference details the GPCR-SSFE 1.0 web server:
Worth CL, Kreuchwig A, Kleinau G and Krause G (2011) GPCR-SSFE: A comprehensive database of G-protein-coupled receptor template predictions and homology models BMC Bioinformatics 12:185.
The methodology used for template selection by GPCR-SSFE 1.0 is detailed in the following paper:
Worth CL, Kleinau G and Krause G (2009) Comparative sequence and structural analyses of G-protein-coupled receptor crystal structures and implications for molecular models. PLoS One 4(9): e7011.