5DGY image
Deposition Date 2015-08-28
Release Date 2016-03-23
Last Version Date 2024-10-16
Entry Detail
PDB ID:
5DGY
Title:
Crystal structure of rhodopsin bound to visual arrestin
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
7.70 Å
R-Value Free:
0.33
R-Value Work:
0.28
R-Value Observed:
0.28
Space Group:
P 21 21 21
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Endolysin,Rhodopsin,S-arrestin
Gene (Uniprot):E, RHO, Sag
Mutagens:R12G, C54T, C97A , I137R,N2C, E113Q, M257Y, N282C,L374A, V375A, F376A
Chain IDs:A, B, C, D
Chain Length:906
Number of Molecules:4
Biological Source:Enterobacteria phage T4, Homo sapiens, Mus musculus
Ligand Molecules
Primary Citation
X-ray laser diffraction for structure determination of the rhodopsin-arrestin complex.
Sci Data 3 160021 160021 (2016)
PMID: 27070998 DOI: 10.1038/sdata.2016.21

Abstact

Serial femtosecond X-ray crystallography (SFX) using an X-ray free electron laser (XFEL) is a recent advancement in structural biology for solving crystal structures of challenging membrane proteins, including G-protein coupled receptors (GPCRs), which often only produce microcrystals. An XFEL delivers highly intense X-ray pulses of femtosecond duration short enough to enable the collection of single diffraction images before significant radiation damage to crystals sets in. Here we report the deposition of the XFEL data and provide further details on crystallization, XFEL data collection and analysis, structure determination, and the validation of the structural model. The rhodopsin-arrestin crystal structure solved with SFX represents the first near-atomic resolution structure of a GPCR-arrestin complex, provides structural insights into understanding of arrestin-mediated GPCR signaling, and demonstrates the great potential of this SFX-XFEL technology for accelerating crystal structure determination of challenging proteins and protein complexes.

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Primary Citation of related structures
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