9JG0 | pdb_00009jg0

Cryo-EM structure of neuropeptide FF receptor 2 in the ligand-free state with BRIL fusion, anti-BRIL Fab, and nanobody

External Resource: Annotation

Domain Annotation: SCOP2 Classification
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth R]	SCOP2B Superfamily	Cytochromes	8057879	3001526	SCOP2B (2022-06-29)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
D [auth L]	Light Chain	IGKV1	Kappa	isoform 2 of neuropeptide ff receptor 2,soluble cytochromeb562	SAbDab (2026-02-27)
C [auth K]	Heavy Chain	IGHV1	-	-	SAbDab (2026-02-27)
B [auth H]	Heavy Chain	IGHV3	-	isoform 2 of neuropeptide ff receptor 2,soluble cytochromeb562	SAbDab (2026-02-27)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth R]	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
D [auth L]	Anti-BRIL fab light chain	-	-	-
C [auth K]	Anti-fab nanobody	-	-	-
B [auth H]	Anti-BRIL fab heavy chain	-	-	-
A [auth R]	Isoform 2 of Neuropeptide FF receptor 2,Soluble cytochrome b562	binding tetrapyrrole binding heme binding electron transfer activity cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding molecular transducer activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity binding tetrapyrrole binding heme binding electron transfer activity cation binding transition metal ion binding iron ion binding ion binding metal ion binding small molecule binding molecular transducer activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity peptide receptor activity G protein-coupled peptide receptor activity neuropeptide receptor activity protein binding signaling receptor binding G protein-coupled receptor binding opioid receptor binding	electron transport chain metabolic process cellular process generation of precursor metabolites and energy cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell communication G protein-coupled receptor signaling pathway signal transduction neuropeptide signaling pathway electron transport chain metabolic process cellular process generation of precursor metabolites and energy cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation cell communication G protein-coupled receptor signaling pathway signal transduction neuropeptide signaling pathway detection of stimulus response to abiotic stimulus detection of abiotic stimulus regulation of signaling regulation of signal transduction regulation of MAPK cascade intracellular signal transduction regulation of intracellular signal transduction regulation of response to stimulus intracellular signaling cassette MAPK cascade regulation of cell communication cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to endogenous stimulus response to chemical cellular response to hormone stimulus	cellular anatomical structure periplasmic space intracellular organelle intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cell periphery plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth R]	IPR010980	Cytochrome c/b562	Homologous Superfamily
A [auth R]	IPR009155	Cytochrome b562	Family
A [auth R]	IPR005397	Neuropeptide FF receptor, type 2	Family
A [auth R]	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
A [auth R]	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
A [auth R]	IPR005395	Neuropeptide FF receptor family	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth R]	Pharos: Q9Y5X5	interstitial cystitis

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A [auth R]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth R]	MemProtMD	Annotated as membrane protein by MemProtMD

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

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