1YHU | pdb_00001yhu

Crystal structure of Riftia pachyptila C1 hemoglobin reveals novel assembly of 24 subunits.

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
U	d1yhuu_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
Q	d1yhuq_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
M	d1yhum_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
I	d1yhui_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
E	d1yhue_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
A	d1yhua_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
V	d1yhuv_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
R	d1yhur_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
N	d1yhun_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
J	d1yhuj_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
F	d1yhuf_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
B	d1yhub_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
X	d1yhux_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
T	d1yhut_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
P	d1yhup_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
L	d1yhul_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
H	d1yhuh_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)
D	d1yhud_	All alpha proteins	Globin-like	Globin-like	automated matches	automated matches	(Riftia pachyptila ) [TaxId: 6426 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
U	SCOP2B Superfamily	Globin-like	8061078	3000554	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	Globin-like	8061078	3000554	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Globin-like	8061078	3000554	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Globin-like	8061078	3000554	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Globin-like	8061078	3000554	SCOP2B (2022-06-29)
A	SCOP2 Family	Globins	8061077	4000551	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Globin-like	8061078	3000554	SCOP2 (2022-06-29)
V	SCOP2B Superfamily	Globin-like	8066397	3000554	SCOP2B (2022-06-29)
R	SCOP2B Superfamily	Globin-like	8066397	3000554	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	Globin-like	8066397	3000554	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Globin-like	8066397	3000554	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Globin-like	8066397	3000554	SCOP2B (2022-06-29)
B	SCOP2 Family	Globins	8066396	4000551	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Globin-like	8066397	3000554	SCOP2 (2022-06-29)
W	SCOP2B Superfamily	Globin-like	8070503	3000554	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	Globin-like	8070503	3000554	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Globin-like	8070503	3000554	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Globin-like	8070503	3000554	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Globin-like	8070503	3000554	SCOP2B (2022-06-29)
C	SCOP2 Family	Globins	8070502	4000551	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Globin-like	8070503	3000554	SCOP2 (2022-06-29)
X	SCOP2B Superfamily	Globin-like	8066409	3000554	SCOP2B (2022-06-29)
T	SCOP2B Superfamily	Globin-like	8066409	3000554	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	Globin-like	8066409	3000554	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	Globin-like	8066409	3000554	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Globin-like	8066409	3000554	SCOP2B (2022-06-29)
D	SCOP2 Family	Globins	8066408	4000551	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	Globin-like	8066409	3000554	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
U	7kD_DNA_binding	e1yhuU1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
Q	7kD_DNA_binding	e1yhuQ1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
M	7kD_DNA_binding	e1yhuM1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
I	7kD_DNA_binding	e1yhuI1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
E	7kD_DNA_binding	e1yhuE1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
A	Toxin_cobra-type	e1yhuA1	A: a/b three-layered sandwiches	X: Globin-like	H: Ring-building motif I in type III secretion system	T: Ring-building motif I in type III secretion system	F: Toxin_cobra-type	ECOD (v294.1)
V	7kD_DNA_binding	e1yhuV1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
R	7kD_DNA_binding	e1yhuR1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
N	7kD_DNA_binding	e1yhuN1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
J	7kD_DNA_binding	e1yhuJ1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
F	7kD_DNA_binding	e1yhuF1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
B	Toxin_cobra-type	e1yhuB1	A: a/b three-layered sandwiches	X: Globin-like	H: Ring-building motif I in type III secretion system	T: Ring-building motif I in type III secretion system	F: Toxin_cobra-type	ECOD (v294.1)
W	7kD_DNA_binding	e1yhuW1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
S	7kD_DNA_binding	e1yhuS1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
O	7kD_DNA_binding	e1yhuO1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
K	7kD_DNA_binding	e1yhuK1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
G	7kD_DNA_binding	e1yhuG1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
C	Toxin_cobra-type	e1yhuC1	A: a/b three-layered sandwiches	X: Globin-like	H: Ring-building motif I in type III secretion system	T: Ring-building motif I in type III secretion system	F: Toxin_cobra-type	ECOD (v294.1)
X	7kD_DNA_binding	e1yhuX1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
T	7kD_DNA_binding	e1yhuT1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
P	7kD_DNA_binding	e1yhuP1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
L	7kD_DNA_binding	e1yhuL1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
H	7kD_DNA_binding	e1yhuH1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: 7kD_DNA_binding	ECOD (v294.1)
D	Toxin_cobra-type	e1yhuD1	A: a/b three-layered sandwiches	X: Globin-like	H: Ring-building motif I in type III secretion system	T: Ring-building motif I in type III secretion system	F: Toxin_cobra-type	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
U	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
Q	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
M	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
I	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
E	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
A	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
V	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
R	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
N	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
J	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
F	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
B	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
W	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
S	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
O	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
K	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
G	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
C	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
X	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
T	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
P	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
L	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
H	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)
D	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, E, I, M, Q A, E, I, M, Q, U	hemoglobin A1 chain	oxygen binding binding small molecule binding oxygen carrier activity molecular carrier activity tetrapyrrole binding heme binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding	-	protein-containing complex cellular anatomical structure intracellular anatomical structure hemoglobin complex cytoplasm cytosol extracellular region
B, F, J, N, R B, F, J, N, R, V	Giant hemoglobins B chain	oxygen binding binding small molecule binding oxygen carrier activity molecular carrier activity tetrapyrrole binding heme binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding	-	protein-containing complex cellular anatomical structure intracellular anatomical structure hemoglobin complex cytoplasm cytosol extracellular region
C, G, K, O, S C, G, K, O, S, W	hemoglobin B1a chain	oxygen binding binding small molecule binding oxygen carrier activity molecular carrier activity tetrapyrrole binding heme binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding	-	protein-containing complex cellular anatomical structure intracellular anatomical structure hemoglobin complex cytoplasm cytosol extracellular region
D, H, L, P, T D, H, L, P, T, X	hemoglobin B2 chain	oxygen binding binding small molecule binding oxygen carrier activity molecular carrier activity tetrapyrrole binding heme binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding	-	protein-containing complex cellular anatomical structure intracellular anatomical structure hemoglobin complex cytoplasm cytosol extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, E, I, M, Q A, E, I, M, Q, U	IPR044399	Myoglobin-like, M family globin domain	Domain
A, E, I, M, Q A, E, I, M, Q, U	IPR014610	Globin, extracellular	Family
A, E, I, M, Q A, E, I, M, Q, U	IPR009050	Globin-like superfamily	Homologous Superfamily
A, E, I, M, Q A, E, I, M, Q, U	IPR000971	Globin	Domain
A, E, I, M, Q A, E, I, M, Q, U	IPR012292	Globin/Protoglobin	Homologous Superfamily
B, F, J, N, R B, F, J, N, R, V	IPR044399	Myoglobin-like, M family globin domain	Domain
B, F, J, N, R B, F, J, N, R, V	IPR014610	Globin, extracellular	Family
B, F, J, N, R B, F, J, N, R, V	IPR009050	Globin-like superfamily	Homologous Superfamily
B, F, J, N, R B, F, J, N, R, V	IPR000971	Globin	Domain
B, F, J, N, R B, F, J, N, R, V	IPR012292	Globin/Protoglobin	Homologous Superfamily
B, F, J, N, R B, F, J, N, R, V	IPR050532	Globin-like Oxygen Transporters	Family
C, G, K, O, S C, G, K, O, S, W	IPR044399	Myoglobin-like, M family globin domain	Domain
C, G, K, O, S C, G, K, O, S, W	IPR014610	Globin, extracellular	Family
C, G, K, O, S C, G, K, O, S, W	IPR009050	Globin-like superfamily	Homologous Superfamily
C, G, K, O, S C, G, K, O, S, W	IPR000971	Globin	Domain
C, G, K, O, S C, G, K, O, S, W	IPR012292	Globin/Protoglobin	Homologous Superfamily
D, H, L, P, T D, H, L, P, T, X	IPR044399	Myoglobin-like, M family globin domain	Domain
D, H, L, P, T D, H, L, P, T, X	IPR014610	Globin, extracellular	Family
D, H, L, P, T D, H, L, P, T, X	IPR009050	Globin-like superfamily	Homologous Superfamily
D, H, L, P, T D, H, L, P, T, X	IPR000971	Globin	Domain
D, H, L, P, T D, H, L, P, T, X	IPR012292	Globin/Protoglobin	Homologous Superfamily