6LN2 | pdb_00006ln2

Crystal structure of full length human GLP1 receptor in complex with Fab fragment (Fab7F38)

External Resource: Annotation

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
Pharos: Disease Associations
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	FnI-like domain	8086309	3000979	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Rubredoxin-like	8039183	3001257	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	G protein-coupled receptor-like	8091126	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)
C	V-set_8	e6ln2C2	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)
C	C1-set_1	e6ln2C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
B	C1-set_4	e6ln2B1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
B	V-set	e6ln2B2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
A	7tm_2,Rubredoxin	e6ln2A1	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_2,Rubredoxin	ECOD (1.6)
A	HRM	e6ln2A2	A: few secondary structure elements	X: Hormone receptor domain (HRM, Pfam 02793) (From Topology)	H: Hormone receptor domain (HRM, Pfam 02793) (From Topology)	T: Hormone receptor domain (HRM, Pfam 02793)	F: HRM	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
A	4.10.1240.10	Few Secondary Structures	Irregular	Hormone receptor fold	GPCR, family 2, extracellular hormone receptor domain	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
C	Fab 7F38	VH-CH1	Mus musculus (house mouse)	IGHV1-1401, IGHJ401, IGHG401, IGHG404	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-4_KAPPA	IMGT (202538-0)
B	Fab 7F38	L-KAPPA	Mus musculus (house mouse)	IGKV4-6101, IGKJ101, IGKC*01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-4_KAPPA	IMGT (202538-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C	Heavy Chain	IGHV1	-	glucagon-like peptide 1 receptor,rubredoxin,glucagon-likepeptide 1 receptor	SAbDab (2025-10-03)
B	Light Chain	IGKV4	Kappa	glucagon-like peptide 1 receptor,rubredoxin,glucagon-likepeptide 1 receptor	SAbDab (2025-10-03)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF02793	Hormone receptor domain (HRM)	Hormone receptor domain	-	Family
A	PF00002	7 transmembrane receptor (Secretin family) (7tm_2)	7 transmembrane receptor (Secretin family)	This family is known as Family B, the secretin-receptor family or family 2 of the G-protein-coupled receptors (GCPRs). They have been described in many animal species, but not in plants, fungi or prokaryotes. Three distinct sub-families are recognise ...	This family is known as Family B, the secretin-receptor family or family 2 of the G-protein-coupled receptors (GCPRs). They have been described in many animal species, but not in plants, fungi or prokaryotes. Three distinct sub-families are recognised. Subfamily B1 contains classical hormone receptors, such as receptors for secretin and glucagon, that are all involved in cAMP-mediated signalling pathways. Subfamily B2 contains receptors with long extracellular N-termini, such as the leukocyte cell-surface antigen CD97 (Swiss:P48960); calcium-independent receptors for latrotoxin (such as Swiss:O94910), and brain-specific angiogenesis inhibitors (such as Swiss:O14514) amongst others. Subfamily B3 includes Methuselah and other Drosophila proteins (e.g. Swiss:P83119). Other than the typical seven-transmembrane region, characteristic structural features include an amino-terminal extracellular domain involved in ligand binding, and an intracellular loop (IC3) required for specific G-protein coupling [1].	Domain
A	PF00301	Rubredoxin (Rubredoxin)	Rubredoxin		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C	Fab7F38_heavy chain	-	-	-
B	Fab7F38_light chain	-	-	-
A	Glucagon-like peptide 1 receptor,Rubredoxin,Glucagon-like peptide 1 receptor	electron transfer activity cation binding transition metal ion binding iron ion binding ion binding binding metal ion binding small molecule binding glucagon receptor activity peptide receptor activity molecular transducer activity G protein-coupled receptor activity G protein-coupled peptide receptor activity signaling receptor activity electron transfer activity cation binding transition metal ion binding iron ion binding ion binding binding metal ion binding small molecule binding glucagon receptor activity peptide receptor activity molecular transducer activity G protein-coupled receptor activity G protein-coupled peptide receptor activity signaling receptor activity transmembrane signaling receptor activity amide binding peptide hormone binding hormone binding glucagon-like peptide 1 receptor activity	alkane metabolic process catabolic process hydrocarbon catabolic process metabolic process cellular process alkane catabolic process hydrocarbon metabolic process positive regulation of cytosolic calcium ion concentration biological regulation regulation of biological quality heart process multicellular organismal process system process regulation of biological process alkane metabolic process catabolic process hydrocarbon catabolic process metabolic process cellular process alkane catabolic process hydrocarbon metabolic process positive regulation of cytosolic calcium ion concentration biological regulation regulation of biological quality heart process multicellular organismal process system process regulation of biological process regulation of heart contraction regulation of system process circulatory system process regulation of blood circulation regulation of multicellular organismal process heart contraction blood circulation regulation of blood pressure positive regulation of blood pressure cellular response to stimulus regulation of cellular process response to stimulus signaling adenylate cyclase-activating G protein-coupled receptor signaling pathway cell communication adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway signal transduction response to stress response to psychosocial stress cell surface receptor signaling pathway behavior learning or memory nervous system process cognition transport secretion regulation of hormone levels cell-cell signaling export from cell hormone secretion establishment of localization localization secretion by cell signal release hormone transport positive regulation of adenylate cyclase activity positive regulation of molecular function regulation of molecular function positive regulation of cyclase activity activation of adenylate cyclase activity regulation of adenylate cyclase activity regulation of catalytic activity positive regulation of catalytic activity positive regulation of lyase activity establishment of protein localization cellular localization nitrogen compound transport protein targeting protein transmembrane transport establishment of localization in cell post-translational protein targeting to membrane, translocation intracellular protein localization establishment of protein localization to endoplasmic reticulum establishment of protein localization to membrane intracellular protein transmembrane transport intracellular transport post-translational protein targeting to endoplasmic reticulum membrane localization within membrane protein targeting to membrane transmembrane transport establishment of protein localization to organelle protein transport macromolecule localization intracellular protein transport protein targeting to ER negative regulation of blood pressure	cellular anatomical structure membrane cell periphery plasma membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR050526	Rubredoxin electron transfer	Family
A	IPR018527	Rubredoxin, iron-binding site	Binding Site
A	IPR024922	Rubredoxin	Family
A	IPR024934	Rubredoxin-like domain	Domain
A	IPR024935	Rubredoxin domain	Domain
A	IPR017983	GPCR, family 2, secretin-like, conserved site	Conserved Site
A	IPR050332	G-protein coupled receptor 2	Family
A	IPR003290	GPCR, family 2, glucagon-like peptide-1/glucagon receptor	Family
A	IPR036445	GPCR family 2, extracellular hormone receptor domain superfamily	Homologous Superfamily
A	IPR000832	GPCR, family 2, secretin-like	Family
A	IPR047033	Glucagon-like peptide-1 receptor, 7TM	Domain
A	IPR017981	GPCR, family 2-like, 7TM	Domain
A	IPR001879	GPCR, family 2, extracellular hormone receptor domain	Domain
A	IPR003292	GPCR, family 2, glucagon-like peptide-1 receptor	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P43220	type 2 diabetes mellitus hypertensive disorder cancer hyperplasia benign neoplasm heart disease Neoplasms osteosarcoma hyperglycemia hypoglycemia nephrolithiasis psoriasis myocardial infarction obesity disorder

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Transmembrane	Alpha-helical polytopic	Rhodopsin-like receptors and pumps	GPCR Secretin (B) family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	G Protein-Coupled Receptors: Class B1	Full-length GLP-1 receptor (GLP-1R) without orthosteric ligands

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.