6IBB image
Deposition Date 2018-11-29
Release Date 2019-08-14
Last Version Date 2024-10-23
Entry Detail
PDB ID:
6IBB
Title:
Crystal structure of the rat isoform of the succinate receptor SUCNR1 (GPR91) in complex with a nanobody
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.12 Å
R-Value Free:
0.21
R-Value Work:
0.17
R-Value Observed:
0.18
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Succinate receptor 1
Gene (Uniprot):Sucnr1
Chain IDs:A, C
Chain Length:342
Number of Molecules:2
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Nanobody6
Chain IDs:B, D
Chain Length:142
Number of Molecules:2
Biological Source:Vicugna pacos
Primary Citation
Structural basis of species-selective antagonist binding to the succinate receptor.
Nature 574 581 585 (2019)
PMID: 31645725 DOI: 10.1038/s41586-019-1663-8

Abstact

The tricarboxylic acid cycle intermediate succinate is involved in metabolic processes and plays a crucial role in the homeostasis of mitochondrial reactive oxygen species1. The receptor responsible for succinate signalling, SUCNR1 (also known as GPR91), is a member of the G-protein-coupled-receptor family2 and links succinate signalling to renin-induced hypertension, retinal angiogenesis and inflammation3-5. Because SUCNR1 senses succinate as an immunological danger signal6-which has relevance for diseases including ulcerative colitis, liver fibrosis7, diabetes and rheumatoid arthritis3,8-it is of interest as a therapeutic target. Here we report the high-resolution crystal structure of rat SUCNR1 in complex with an intracellular binding nanobody in the inactive conformation. Structure-based mutagenesis and radioligand-binding studies, in conjunction with molecular modelling, identified key residues for species-selective antagonist binding and enabled the determination of the high-resolution crystal structure of a humanized rat SUCNR1 in complex with a high-affinity, human-selective antagonist denoted NF-56-EJ40. We anticipate that these structural insights into the architecture of the succinate receptor and its antagonist selectivity will enable structure-based drug discovery and will further help to elucidate the function of SUCNR1 in vitro and in vivo.

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