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GPCRM specifications

Information


Unique identifier OMICS_14469
Name GPCRM
Alternative name G-protein coupled receptors modeling
Interface Web user interface
Restrictions to use None
Programming languages Python
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Dorota Latek

Publications for G-protein coupled receptors modeling

GPCRM citations

 (5)
library_books

GPCRdb in 2018: adding GPCR structure models and ligands

2017
Nucleic Acids Res
PMCID: 5753179
PMID: 29155946
DOI: 10.1093/nar/gkx1109

[…] background), GPCR-I-TASSER performs the best, especially in the overall and 7TM. In contrast, three modeling web servers (gray background) perform best in different categories; SWISS-MODEL: overall, GPCRM: 7TM and ligand site, and GPCR-ModSim: ECL2. As could be expected, the RMSDs of the overall and 7TM models correlate directly with the sequence similarities and identities to the main template ( […]

library_books

Hybrid approach to structure modeling of the histamine H3 receptor: Multi level assessment as a tool for model verification

2017
PLoS One
PMCID: 5629032
PMID: 28982153
DOI: 10.1371/journal.pone.0186108

[…] uder et al., compounds based on the structure of pitolisant were presented[]. Binding modes of those ligands were analyzed using a homology model of the H3 receptor prepared with the internet service GPCRM based on the model of M3 muscarinic receptor (PDB: 4DAJ) as a template. The described compounds have two marginally situated fragments connected with an alkyl linker responsible for binding to t […]

library_books

Rosetta Broker for membrane protein structure prediction: concentrative nucleoside transporter 3 and corticotropin releasing factor receptor 1 test cases

2017
BMC Struct Biol
PMCID: 5543540
PMID: 28774292
DOI: 10.1186/s12900-017-0078-8

[…] GPCRM is available at: http://gpcrm.biomodellab.eu. CRFR1 and GCGR sequences and structures are available at: http://www.rcsb.org, PDB id: 4K5Y and 4L6R, respectively. The vCNT structure is available […]

library_books

GPCRdb: the G protein‐coupled receptor database – an introduction

2016
Br J Pharmacol
PMCID: 4919580
PMID: 27155948
DOI: 10.1111/bph.13509

[…] ng it easier for new programmers to get started. The complete source code is freely available at https://bitbucket.org/gpcr/protwis.Finally, specialized web servers exist for GPCR homology modelling; GPCRM (Latek et al., ), GoMoDo (Sandal et al., ) and SSFE (Worth et al., ); and molecular dynamics: GPCR Mod‐Sim (Rodríguez et al., ). The GPCRdb is working together with these servers towards exchang […]

library_books

In Silico Modeling of Human α2C Adrenoreceptor Interaction with Filamin 2

2014
PLoS One
PMCID: 4128582
PMID: 25110951
DOI: 10.1371/journal.pone.0103099

[…] mbrane protein. Hence, in addition to these aforementioned protein structure prediction servers, we used servers optimized to predict 3D structure of transmembrane proteins. Among these servers were: GPCRM , GPCR-ITASSER and GPCR-SSFE . These servers created 145 initial models in total, which were used as input for the QA-RecombineIt server . By using recombination of the initial models, the QA-R […]

Citations

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GPCRM institution(s)
International Institute of Molecular and Cell Biology, Warsaw, Poland; EMBL, Structural and Computational Biology Unit, Heidelberg, Germany; Faculty of Chemistry, University of Warsaw, Warsaw, Poland
GPCRM funding source(s)
The research has received funding from the National Center of Science DEC-2011/03/B/NZ1/03204 and a POIG Dotacjena innowacje grant No. 02.03.00-00-003-09.

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