6Z10 | pdb_00006z10

Crystal structure of a humanized (K18E, K269N) rat succinate receptor SUCNR1 (GPR91) in complex with a nanobody and antagonist

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6z10a_	Membrane and cell surface proteins and peptides	Class A G protein-coupled receptor (GPCR)-like	Class A G protein-coupled receptor (GPCR)-like	automated matches	automated matches	Rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d6z10b1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Vicugna pacos ) [TaxId: 30538 ],	SCOPe (2.08)
B	d6z10b2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Vicugna pacos ) [TaxId: 30538 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	G protein-coupled receptor-like	8099816	3000473	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	7tm_1_1	e6z10A1	A: alpha bundles	X: Family A G protein-coupled receptor-like (From Topology)	H: Family A G protein-coupled receptor-like (From Topology)	T: Family A G protein-coupled receptor-like	F: 7tm_1_1	ECOD (1.6)
B	V-set_8	e6z10B1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
A	Vicugna pacos	null	Vicugna pacos (alpaca)	-	-	IG	VH	IMGT (202549-0)
B	Vicugna pacos	VH	Vicugna pacos (alpaca)	IGHV3-301, IGHJ401, IGHJ6*01	V-DOMAIN VH	IG	VH	IMGT (202549-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B	Heavy Chain	IGHV1	-	succinate receptor 1	SAbDab (2025-12-19)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00001	7 transmembrane receptor (rhodopsin family) (7tm_1)	7 transmembrane receptor (rhodopsin family)	This family contains, amongst other G-protein-coupled receptors (GCPRs), members of the opsin family, which have been considered to be typical members of the rhodopsin superfamily. They share several motifs, mainly the seven transmembrane helices, GC ...	This family contains, amongst other G-protein-coupled receptors (GCPRs), members of the opsin family, which have been considered to be typical members of the rhodopsin superfamily. They share several motifs, mainly the seven transmembrane helices, GCPRs of the rhodopsin superfamily. All opsins bind a chromophore, such as 11-cis-retinal. The function of most opsins other than the photoisomerases is split into two steps: light absorption and G-protein activation. Photoisomerases, on the other hand, are not coupled to G-proteins - they are thought to generate and supply the chromophore that is used by visual opsins [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Succinate receptor 1	molecular transducer activity signaling receptor activity G protein-coupled receptor activity transmembrane signaling receptor activity	multicellular organismal process response to stimulus macrophage activation involved in immune response immune response cell activation cell activation involved in immune response myeloid cell activation involved in immune response myeloid leukocyte activation leukocyte activation immune effector process macrophage activation immune system process leukocyte activation involved in immune response cellular process multicellular organismal process response to stimulus macrophage activation involved in immune response immune response cell activation cell activation involved in immune response myeloid cell activation involved in immune response myeloid leukocyte activation leukocyte activation immune effector process macrophage activation immune system process leukocyte activation involved in immune response cellular process regulation of defense response regulation of biological process regulation of response to external stimulus defense response biological regulation positive regulation of biological process response to external stimulus regulation of inflammatory response positive regulation of response to stimulus positive regulation of response to external stimulus positive regulation of inflammatory response regulation of response to stimulus regulation of response to stress response to stress positive regulation of defense response inflammatory response response to metal ion response to chemical response to calcium ion chemotaxis positive regulation of locomotion regulation of chemotaxis positive regulation of chemotaxis taxis regulation of locomotion locomotion regulation of systemic arterial blood pressure by renin-angiotensin renin secretion into blood stream regulation of systemic arterial blood pressure by hormone system process regulation of systemic arterial blood pressure mediated by a chemical signal establishment of protein localization nitrogen compound transport signaling transport cell communication protein localization to extracellular region localization secretion by cell circulatory system process renal response to blood flow involved in circulatory renin-angiotensin regulation of systemic arterial blood pressure signal release renal system process involved in regulation of systemic arterial blood pressure regulation of biological quality intracellular protein localization blood circulation renal system process secretion regulation of blood pressure establishment of protein localization to extracellular region cell-cell signaling export from cell regulation of systemic arterial blood pressure by circulatory renin-angiotensin protein secretion establishment of localization regulation of systemic arterial blood pressure endocrine process protein transport macromolecule localization regulation of cellular process regulation of protein metabolic process primary metabolic process regulation of macromolecule metabolic process regulation of primary metabolic process regulation of angiotensin metabolic process metabolic process protein metabolic process macromolecule metabolic process regulation of metabolic process cellular response to stimulus G protein-coupled receptor signaling pathway signal transduction multicellular organismal-level homeostasis homeostatic process energy homeostasis chemical homeostasis glucose homeostasis carbohydrate homeostasis	cell periphery cellular anatomical structure plasma membrane membrane
B	Nanobody6	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
A	IPR017452	GPCR, rhodopsin-like, 7TM	Domain

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	G Protein-Coupled Receptors: Class A	succinate receptor SUCNR1 (GPR91). Humanized (K18E, K269N mutant) in complex with a Nb and antagonist

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.