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Nucleic Acids Research
Article . 2021 . Peer-reviewed
License: CC BY
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Nucleic Acids Research
Article
License: CC BY
Data sources: UnpayWall
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PubMed Central
Other literature type . 2021
License: CC BY
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DBLP
Article
Data sources: DBLP
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GPCRsignal: webserver for analysis of the interface between G-protein–coupled receptors and their effector proteins by dynamics and mutations

Authors: Przemyslaw Miszta; Pawel Pasznik; Szymon Niewieczerzal; Jakub Jakowiecki; Slawomir Filipek;

GPCRsignal: webserver for analysis of the interface between G-protein–coupled receptors and their effector proteins by dynamics and mutations

Abstract

Abstract GPCRsignal (https://gpcrsignal.biomodellab.eu/) is a webserver devoted to signaling complexes of G-protein–coupled receptors (GPCRs). The recent improvement in cryo-electron microscopy resulted in the determination of a large number of high-resolution structures of GPCRs bound to their effector proteins: G proteins or arrestins. Analyzing the interfaces between receptor and an effector protein is of high importance since a selection of proper G protein or specific conformation of arrestin leads to changes of signaling that can significantly affect action of drugs. GPCRsignal provides a possibility of running molecular dynamics simulations of all currently available GPCR-effector protein complexes for curated structures: wild-type, with crystal/cryo-EM mutations, or with mutations introduced by the user. The simulations are performed in an implicit water-membrane environment, so they are rather fast. User can run several simulations to obtain statistically valid results. The simulations can be analyzed separately using dynamic FlarePlots for particular types of interactions. One can also compare groups of simulations in Interaction frequency analysis as HeatMaps and also in interaction frequency difference analysis as sticks, linking the interacting residues, of different color and size proportional to differences in contact frequencies.

Related Organizations
Keywords

Arrestins, Web Server Issue, Cryoelectron Microscopy, Mutation, Molecular Dynamics Simulation, Heterotrimeric GTP-Binding Proteins, Software, Receptors, G-Protein-Coupled, Signal Transduction

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citations
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
4
Top 10%
Average
Average
Green
gold