2YMD

Crystal structure of a mutant binding protein (5HTBP-AChBP) in complex with serotonin (5-hydroxytryptamine)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	d2ymda_	All beta proteins	Nicotinic receptor ligand binding domain-like	Nicotinic receptor ligand binding domain-like	automated matches	automated matches	CALIFORNIA SEA HARE (Aplysia californica ) [TaxId: 6500 ],	SCOPe (2.08)
B	d2ymdb_	All beta proteins	Nicotinic receptor ligand binding domain-like	Nicotinic receptor ligand binding domain-like	automated matches	automated matches	CALIFORNIA SEA HARE (Aplysia californica ) [TaxId: 6500 ],	SCOPe (2.08)
G	d2ymdg_	All beta proteins	Nicotinic receptor ligand binding domain-like	Nicotinic receptor ligand binding domain-like	automated matches	automated matches	CALIFORNIA SEA HARE (Aplysia californica ) [TaxId: 6500 ],	SCOPe (2.08)
H	d2ymdh_	All beta proteins	Nicotinic receptor ligand binding domain-like	Nicotinic receptor ligand binding domain-like	automated matches	automated matches	CALIFORNIA SEA HARE (Aplysia californica ) [TaxId: 6500 ],	SCOPe (2.08)
I	d2ymdi_	All beta proteins	Nicotinic receptor ligand binding domain-like	Nicotinic receptor ligand binding domain-like	automated matches	automated matches	CALIFORNIA SEA HARE (Aplysia californica ) [TaxId: 6500 ],	SCOPe (2.08)
C	d2ymdc_	All beta proteins	Nicotinic receptor ligand binding domain-like	Nicotinic receptor ligand binding domain-like	automated matches	automated matches	CALIFORNIA SEA HARE (Aplysia californica ) [TaxId: 6500 ],	SCOPe (2.08)
D	d2ymdd_	All beta proteins	Nicotinic receptor ligand binding domain-like	Nicotinic receptor ligand binding domain-like	automated matches	automated matches	CALIFORNIA SEA HARE (Aplysia californica ) [TaxId: 6500 ],	SCOPe (2.08)
E	d2ymde_	All beta proteins	Nicotinic receptor ligand binding domain-like	Nicotinic receptor ligand binding domain-like	automated matches	automated matches	CALIFORNIA SEA HARE (Aplysia californica ) [TaxId: 6500 ],	SCOPe (2.08)
F	d2ymdf_	All beta proteins	Nicotinic receptor ligand binding domain-like	Nicotinic receptor ligand binding domain-like	automated matches	automated matches	CALIFORNIA SEA HARE (Aplysia californica ) [TaxId: 6500 ],	SCOPe (2.08)
J	d2ymdj_	All beta proteins	Nicotinic receptor ligand binding domain-like	Nicotinic receptor ligand binding domain-like	automated matches	automated matches	CALIFORNIA SEA HARE (Aplysia californica ) [TaxId: 6500 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Nicotinic receptor ligand binding domain-like	8082308	3000369	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Nicotinic receptor ligand binding domain-like	8082308	3000369	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Nicotinic receptor ligand binding domain-like	8082308	3000369	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Nicotinic receptor ligand binding domain-like	8082308	3000369	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Nicotinic receptor ligand binding domain-like	8082308	3000369	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Nicotinic receptor ligand binding domain-like	8082308	3000369	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Nicotinic receptor ligand binding domain-like	8082308	3000369	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Nicotinic receptor ligand binding domain-like	8082308	3000369	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Nicotinic receptor ligand binding domain-like	8082308	3000369	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Nicotinic receptor ligand binding domain-like	8082308	3000369	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	PF02931	e2ymdA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: PF02931	ECOD (1.6)
B	PF02931	e2ymdB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: PF02931	ECOD (1.6)
G	PF02931	e2ymdG1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: PF02931	ECOD (1.6)
H	PF02931	e2ymdH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: PF02931	ECOD (1.6)
I	PF02931	e2ymdI1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: PF02931	ECOD (1.6)
C	PF02931	e2ymdC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: PF02931	ECOD (1.6)
D	PF02931	e2ymdD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: PF02931	ECOD (1.6)
E	PF02931	e2ymdE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: PF02931	ECOD (1.6)
F	PF02931	e2ymdF1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: PF02931	ECOD (1.6)
J	PF02931	e2ymdJ1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Nicotinic receptor ligand binding domain-like (From Topology)	T: Nicotinic receptor ligand binding domain-like	F: PF02931	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
B	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
G	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
H	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
I	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
C	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
D	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
E	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
F	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)
J	2.70.170.10	Mainly Beta	Distorted Sandwich	Acetylcholine Binding Protein	Chain: A,	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	PF02931	Neurotransmitter-gated ion-channel ligand binding domain (Neur_chan_LBD)	Neurotransmitter-gated ion-channel ligand binding domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	SOLUBLE ACETYLCHOLINE RECEPTOR	ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity passive transmembrane transporter activity gated channel activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity cation binding ion binding binding metal ion binding ligand-gated channel activity ligand-gated monoatomic ion channel activity extracellular ligand-gated monoatomic ion channel activity passive transmembrane transporter activity gated channel activity monoatomic ion channel activity channel activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity cation binding ion binding binding metal ion binding small molecule binding identical protein binding protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity	-	membrane cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR006202	Neurotransmitter-gated ion-channel ligand-binding domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR036734	Neurotransmitter-gated ion-channel ligand-binding domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J	IPR006201	Neurotransmitter-gated ion-channel	Family

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.