3DHR | pdb_00003dhr

Crystal Structure Determination of Methemoglobin from Pigeon at 2 Angstrom Resolution (Columba livia)

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)
A	d3dhra_	All alpha proteins	Globin-like	Globin-like	Globins	automated matches	(Columba livia ) [TaxId: 8932 ],	SCOPe (2.08)
C	d3dhrc_	All alpha proteins	Globin-like	Globin-like	Globins	automated matches	(Columba livia ) [TaxId: 8932 ],	SCOPe (2.08)
E	d3dhre_	All alpha proteins	Globin-like	Globin-like	Globins	automated matches	(Columba livia ) [TaxId: 8932 ],	SCOPe (2.08)
G	d3dhrg_	All alpha proteins	Globin-like	Globin-like	Globins	automated matches	(Columba livia ) [TaxId: 8932 ],	SCOPe (2.08)
B	d3dhrb_	All alpha proteins	Globin-like	Globin-like	Globins	automated matches	(Columba livia ) [TaxId: 8932 ],	SCOPe (2.08)
D	d3dhrd_	All alpha proteins	Globin-like	Globin-like	Globins	automated matches	(Columba livia ) [TaxId: 8932 ],	SCOPe (2.08)
F	d3dhrf_	All alpha proteins	Globin-like	Globin-like	Globins	automated matches	(Columba livia ) [TaxId: 8932 ],	SCOPe (2.08)
H	d3dhrh_	All alpha proteins	Globin-like	Globin-like	Globins	automated matches	(Columba livia ) [TaxId: 8932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Globin-like	8060956	3000554	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Globin-like	8060956	3000554	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Globin-like	8060956	3000554	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Globin-like	8060956	3000554	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Globin-like	8061016	3000554	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Globin-like	8061016	3000554	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Globin-like	8061016	3000554	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Globin-like	8061016	3000554	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	PLDc_2	e3dhrA1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: FAD-dependent thiol oxidase	T: FAD-dependent thiol oxidase	F: PLDc_2	ECOD (v294.1)
C	NUDIX	e3dhrC1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: NUDIX	ECOD (v294.1)
E	NUDIX	e3dhrE1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: NUDIX	ECOD (v294.1)
G	NUDIX	e3dhrG1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: NUDIX	ECOD (v294.1)
B	PLDc_2	e3dhrB1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: FAD-dependent thiol oxidase	T: FAD-dependent thiol oxidase	F: PLDc_2	ECOD (v294.1)
D	NUDIX	e3dhrD1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: NUDIX	ECOD (v294.1)
F	NUDIX	e3dhrF1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: NUDIX	ECOD (v294.1)
H	NUDIX	e3dhrH1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: NUDIX	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	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)
E	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)
B	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)
F	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)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C, E, G	Hemoglobin subunit alpha-A	protein binding binding haptoglobin binding oxygen binding small molecule binding oxygen carrier activity molecular carrier activity peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity tetrapyrrole binding heme binding protein binding binding haptoglobin binding oxygen binding small molecule binding oxygen carrier activity molecular carrier activity peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity tetrapyrrole binding heme binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding organic acid binding	catabolic process hydrogen peroxide metabolic process reactive oxygen species metabolic process metabolic process cellular process hydrogen peroxide catabolic process	protein-containing complex cellular anatomical structure intracellular anatomical structure hemoglobin complex cytoplasm cytosol haptoglobin-hemoglobin complex extracellular region blood microparticle
B, D, F, H	Hemoglobin subunit beta	protein binding binding haptoglobin binding oxygen binding small molecule binding oxygen carrier activity molecular carrier activity peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity tetrapyrrole binding heme binding protein binding binding haptoglobin binding oxygen binding small molecule binding oxygen carrier activity molecular carrier activity peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity tetrapyrrole binding heme binding organic acid binding cation binding ion binding metal ion binding	catabolic process hydrogen peroxide metabolic process reactive oxygen species metabolic process metabolic process cellular process hydrogen peroxide catabolic process	protein-containing complex cellular anatomical structure intracellular anatomical structure hemoglobin complex cytoplasm cytosol haptoglobin-hemoglobin complex extracellular region blood microparticle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E, G	IPR050056	Hemoglobin and related oxygen transporters	Family
A, C, E, G	IPR002338	Hemoglobin, alpha-type	Family
A, C, E, G	IPR002339	Hemoglobin, pi	Family
A, C, E, G	IPR009050	Globin-like superfamily	Homologous Superfamily
A, C, E, G	IPR012292	Globin/Protoglobin	Homologous Superfamily
A, C, E, G	IPR000971	Globin	Domain
B, D, F, H	IPR050056	Hemoglobin and related oxygen transporters	Family
B, D, F, H	IPR009050	Globin-like superfamily	Homologous Superfamily
B, D, F, H	IPR012292	Globin/Protoglobin	Homologous Superfamily
B, D, F, H	IPR002337	Hemoglobin, beta-type	Family
B, D, F, H	IPR000971	Globin	Domain

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.