6B20

Crystal structure of a complex between G protein beta gamma dimer and an inhibitory Nanobody regulator

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6b20a_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	WD40-repeat	automated matches	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
C [auth B]	d6b20b_	All beta proteins	7-bladed beta-propeller	WD40 repeat-like	WD40-repeat	automated matches	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
B [auth C]	d6b20c_	All alpha proteins	Non-globular all-alpha subunits of globular proteins	Transducin (heterotrimeric G protein), gamma chain	Transducin (heterotrimeric G protein), gamma chain	automated matches	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
D	d6b20d_	All alpha proteins	Non-globular all-alpha subunits of globular proteins	Transducin (heterotrimeric G protein), gamma chain	Transducin (heterotrimeric G protein), gamma chain	automated matches	(Bos taurus ) [TaxId: 9913 ],	SCOPe (2.08)
E	d6b20e_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
F	d6b20f_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	WD40 repeat-like	8042849	3001694	SCOP2B (2022-06-29)
C [auth B]	SCOP2B Superfamily	WD40 repeat-like	8042849	3001694	SCOP2B (2022-06-29)
B [auth C]	SCOP2B Superfamily	Transducin (heterotrimeric G protein), gamma chain	8039083	3001771	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Transducin (heterotrimeric G protein), gamma chain	8039083	3001771	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	ANAPC4_WD40_3	e6b20A1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: ANAPC4_WD40_3	ECOD (1.6)
C [auth B]	ANAPC4_WD40_3	e6b20B1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: ANAPC4_WD40_3	ECOD (1.6)
B [auth C]	G-gamma	e6b20C1	A: extended segments	X: Transducin (heterotrimeric G protein), gamma chain (From Topology)	H: Transducin (heterotrimeric G protein), gamma chain (From Topology)	T: Transducin (heterotrimeric G protein), gamma chain	F: G-gamma	ECOD (1.6)
D	G-gamma	e6b20D1	A: extended segments	X: Transducin (heterotrimeric G protein), gamma chain (From Topology)	H: Transducin (heterotrimeric G protein), gamma chain (From Topology)	T: Transducin (heterotrimeric G protein), gamma chain	F: G-gamma	ECOD (1.6)
E	V-set_1	e6b20E1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_1	ECOD (1.6)
F	V-set_1	e6b20F1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
C [auth B]	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
B [auth C]	4.10.260.10	Few Secondary Structures	Irregular	G Protein Gi Gamma 2	Transducin (heterotrimeric G protein), gamma chain	CATH (4.3.0)
D	4.10.260.10	Few Secondary Structures	Irregular	G Protein Gi Gamma 2	Transducin (heterotrimeric G protein), gamma chain	CATH (4.3.0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
E, F	Heavy Chain	IGHV1	-	guanine nucleotide-binding protein g(i)/g(s)/g(t) subunitbeta-1 \| guanine nucleotide-binding protein g(t) subunit gamma-t1, guanine nucleotide-binding protein g(i)/g(s)/g(t) subunitbeta-1	SAbDab (2024-11-15)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C [auth B]	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat
B [auth C], D	PF00631	GGL domain (G-gamma)	GGL domain	G-protein gamma like domains (GGL) are found in the gamma subunit of the heterotrimeric G protein complex and in regulators of G protein signaling (RGS) proteins [1]. It is also found fused to an inactive Galpha in the Dictyostelium protein gbqA [2] ...	G-protein gamma like domains (GGL) are found in the gamma subunit of the heterotrimeric G protein complex and in regulators of G protein signaling (RGS) proteins [1]. It is also found fused to an inactive Galpha in the Dictyostelium protein gbqA [2]. G-gamma likely shares a common origin with the helical N-terminal unit of G-beta [2]. All organisms that posses a G-beta possess a G-gamma [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C [auth B]	Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	signaling receptor complex adaptor activity protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity	cellular response to nitrogen compound cellular response to stimulus response to dopamine regulation of cellular process response to stimulus signaling cellular response to dopamine response to monoamine cell communication response to catecholamine adenylate cyclase-activating dopamine receptor signaling pathway cellular response to catecholamine stimulus signal transduction response to organic cyclic compound cellular response to nitrogen compound cellular response to stimulus response to dopamine regulation of cellular process response to stimulus signaling cellular response to dopamine response to monoamine cell communication response to catecholamine adenylate cyclase-activating dopamine receptor signaling pathway cellular response to catecholamine stimulus signal transduction response to organic cyclic compound regulation of biological process G protein-coupled dopamine receptor signaling pathway cellular response to organic cyclic compound biological regulation response to oxygen-containing compound response to nitrogen compound adenylate cyclase-activating G protein-coupled receptor signaling pathway cellular response to oxygen-containing compound cellular response to chemical stimulus cellular response to monoamine stimulus response to chemical adenylate cyclase-modulating G protein-coupled receptor signaling pathway cellular process G protein-coupled receptor signaling pathway response to ketone response to prostaglandin response to lipid response to endogenous stimulus response to alcohol cellular response to prostaglandin stimulus cellular response to endogenous stimulus cellular response to prostaglandin E stimulus cellular response to alcohol response to hormone cellular response to lipid response to prostaglandin E cellular response to ketone cellular response to hormone stimulus	cellular anatomical structure membrane protein-containing complex extrinsic component of plasma membrane catalytic complex plasma membrane protein complex cytoplasmic side of membrane plasma membrane membrane protein complex heterotrimeric G-protein complex side of membrane cell periphery cytoplasmic side of plasma membrane GTPase complex cellular anatomical structure membrane protein-containing complex extrinsic component of plasma membrane catalytic complex plasma membrane protein complex cytoplasmic side of membrane plasma membrane membrane protein complex heterotrimeric G-protein complex side of membrane cell periphery cytoplasmic side of plasma membrane GTPase complex extrinsic component of membrane extrinsic component of cytoplasmic side of plasma membrane membrane-bounded organelle non-motile cilium 9+0 non-motile cilium cilium neuron projection photoreceptor disc membrane photoreceptor outer segment plasma membrane bounded cell projection cell projection photoreceptor cell cilium organelle organelle membrane intracellular anatomical structure cytoplasm
B [auth C], D	Guanine nucleotide-binding protein G(T) subunit gamma-T1	protein binding binding G-protein beta-subunit binding	cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation G protein-coupled receptor signaling pathway cellular process signal transduction cell communication	protein-containing complex extrinsic component of plasma membrane catalytic complex plasma membrane protein complex cytoplasmic side of membrane membrane plasma membrane membrane protein complex heterotrimeric G-protein complex side of membrane cell periphery cellular anatomical structure cytoplasmic side of plasma membrane GTPase complex protein-containing complex extrinsic component of plasma membrane catalytic complex plasma membrane protein complex cytoplasmic side of membrane membrane plasma membrane membrane protein complex heterotrimeric G-protein complex side of membrane cell periphery cellular anatomical structure cytoplasmic side of plasma membrane GTPase complex extrinsic component of membrane extrinsic component of cytoplasmic side of plasma membrane membrane-bounded organelle non-motile cilium 9+0 non-motile cilium cilium neuron projection photoreceptor disc membrane photoreceptor outer segment plasma membrane bounded cell projection cell projection photoreceptor cell cilium organelle organelle membrane
E, F	Nanobody against G protein beta gamma dimer	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C [auth B]	IPR019775	WD40 repeat, conserved site	Conserved Site
A, C [auth B]	IPR016346	Guanine nucleotide-binding protein, beta subunit	Family
A, C [auth B]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A, C [auth B]	IPR001632	G-protein, beta subunit	Domain
A, C [auth B]	IPR001680	WD40 repeat	Repeat
A, C [auth B]	IPR020472	G-protein beta WD-40 repeat	Repeat
A, C [auth B]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
B [auth C], D	IPR036284	G-protein gamma-like domain superfamily	Homologous Superfamily
B [auth C], D	IPR015898	G-protein gamma-like domain	Domain
B [auth C], D	IPR001770	G-protein, gamma subunit	Family

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.