6H7L

ACTIVATED TURKEY BETA1 ADRENOCEPTOR WITH BOUND PARTIAL AGONIST DOBUTAMINE AND NANOBODY Nb6B9

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)
F [auth D]	d6h7ld1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	llama (Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
F [auth D]	d6h7ld2	Artifacts	Tags	Tags	Tags	N-terminal Tags	llama (Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
C	d6h7lc1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	llama (Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
C	d6h7lc2	Artifacts	Tags	Tags	Tags	N-terminal Tags	llama (Lama glama ) [TaxId: 9844 ],	SCOPe (2.08)
A [auth E]	d6h7le1	Alpha and beta proteins (a/b)	Thioredoxin fold	Thioredoxin-like	Thioltransferase	Thioredoxin	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A [auth E]	d6h7le2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D [auth F]	d6h7lf_	Alpha and beta proteins (a/b)	Thioredoxin fold	Thioredoxin-like	Thioltransferase	Thioredoxin	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth E]	SCOP2B Superfamily	Thioredoxin-like	8044359	3000031	SCOP2B (2022-06-29)
D [auth F]	SCOP2B Superfamily	Thioredoxin-like	8044359	3000031	SCOP2B (2022-06-29)
B [auth A]	SCOP2B Superfamily	G protein-coupled receptor-like	8091152	3000473	SCOP2B (2022-06-29)
E [auth B]	SCOP2B Superfamily	G protein-coupled receptor-like	8091152	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)
F [auth D]	V-set_1	e6h7lD1	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)
C	V-set_1	e6h7lC1	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)
A [auth E]	Thioredoxin	e6h7lE1	A: a+b three layers	X: Thioredoxin-like	H: Thioredoxin-like (From Topology)	T: Thioredoxin-like	F: Thioredoxin	ECOD (1.6)
D [auth F]	Thioredoxin	e6h7lF1	A: a+b three layers	X: Thioredoxin-like	H: Thioredoxin-like (From Topology)	T: Thioredoxin-like	F: Thioredoxin	ECOD (1.6)
B [auth A]	7tm_1_3	e6h7lA1	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_3	ECOD (1.6)
E [auth B]	7tm_1_3	e6h7lB1	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_3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth E]	3.40.30.10	Alpha Beta	3-Layer(aba) Sandwich	Glutaredoxin	Glutaredoxin	CATH (utative)
D [auth F]	3.40.30.10	Alpha Beta	3-Layer(aba) Sandwich	Glutaredoxin	Glutaredoxin	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, F [auth D]	Camelid antibody fragment Nb80	VH	Lama glama (llama)	IGHV3S301, IGHJ401	V-DOMAIN VH	IG	VH	IMGT (202445-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C, F [auth D]	Heavy Chain	IGHV1	-	beta-1 adrenergic receptor	SAbDab (2024-11-15)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth E], D [auth F]	PF00085	Thioredoxin (Thioredoxin)	Thioredoxin	Thioredoxins are small enzymes that participate in redox reactions, via the reversible oxidation of an active centre disulfide bond. Some members with only the active site are not separated from the noise.	Domain
B [auth A], E [auth B]	PF00001	7 transmembrane receptor (rhodopsin family) (7tm_1)	7 transmembrane receptor (rhodopsin family)	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, F [auth D]	Camelid antibody fragment Nb6B9	-	-	-
A [auth E], D [auth F]	Thioredoxin 1	enzyme regulator activity DNA polymerase processivity factor activity enzyme activator activity molecular function activator activity molecular function regulator activity oxidoreductase activity, acting on a sulfur group of donors disulfide oxidoreductase activity oxidoreductase activity catalytic activity, acting on a protein protein-disulfide reductase activity catalytic activity	cell redox homeostasis cellular homeostasis homeostatic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
B [auth A], E [auth B]	Beta-1 adrenergic receptor	G protein-coupled amine receptor activity molecular transducer activity G protein-coupled receptor activity transmembrane signaling receptor activity signaling receptor activity beta1-adrenergic receptor activity beta-adrenergic receptor activity adrenergic receptor activity identical protein binding protein binding binding	cellular response to stimulus adenylate cyclase-activating adrenergic receptor signaling pathway regulation of biological process regulation of cellular process response to stimulus signaling biological regulation adenylate cyclase-activating G protein-coupled receptor signaling pathway cell communication adrenergic receptor signaling pathway adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway cellular process signal transduction cellular response to stimulus adenylate cyclase-activating adrenergic receptor signaling pathway regulation of biological process regulation of cellular process response to stimulus signaling biological regulation adenylate cyclase-activating G protein-coupled receptor signaling pathway cell communication adrenergic receptor signaling pathway adenylate cyclase-modulating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway cellular process signal transduction heart process multicellular organismal process system process regulation of heart contraction regulation of system process positive regulation of biological process positive regulation of blood circulation positive regulation of heart contraction circulatory system process regulation of blood circulation positive regulation of multicellular organismal process regulation of multicellular organismal process heart contraction blood circulation rhythmic process circadian sleep/wake cycle, sleep circadian sleep/wake cycle rhythmic behavior regulation of circadian sleep/wake cycle circadian rhythm regulation of circadian rhythm regulation of behavior behavior circadian behavior sleep regulation of circadian sleep/wake cycle, sleep circadian sleep/wake cycle process	membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle cell periphery membrane-bounded organelle intracellular anatomical structure early endosome endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure cytoplasmic vesicle organelle cytoplasm vesicle cell periphery plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth E], D [auth F]	IPR017937	Thioredoxin, conserved site	Conserved Site
A [auth E], D [auth F]	IPR013766	Thioredoxin domain	Domain
A [auth E], D [auth F]	IPR005746	Thioredoxin	Family
A [auth E], D [auth F]	IPR036249	Thioredoxin-like superfamily	Homologous Superfamily
B [auth A], E [auth B]	IPR000276	G protein-coupled receptor, rhodopsin-like	Family
B [auth A], E [auth B]	IPR002233	Adrenoceptor family	Family
B [auth A], E [auth B]	IPR017452	GPCR, rhodopsin-like, 7TM	Domain
B [auth A], E [auth B]	IPR000507	Beta 1 adrenoceptor	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
B [auth A], E [auth B]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
B [auth A], E [auth B]	MemProtMD	Annotated as membrane protein by MemProtMD

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
B [auth A], E [auth B]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	G Protein-Coupled Receptors: Class A	β₁adrenergic receptor (engineered) with bound agonist isoprenaline & Nb80 nanobody

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.