1YCB | pdb_00001ycb

DISTAL POCKET POLARITY IN LIGAND BINDING TO MYOGLOBIN: DEOXY AND CARBONMONOXY FORMS OF A THREONINE68 (E11) MUTANT INVESTIGATED BY X-RAY CRYSTALLOGRAPHY AND INFRARED SPECTROSCOPY

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	d1ycba_	All alpha proteins	Globin-like	Globin-like	Globins	Myoglobin	pig (Sus scrofa ) [TaxId: 9823 ],	SCOPe (2.08)
B	d1ycbb_	All alpha proteins	Globin-like	Globin-like	Globins	Myoglobin	pig (Sus scrofa ) [TaxId: 9823 ],	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	8035773	3000554	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Globin-like	8035773	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		e1ycbA1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F:	ECOD (v294.1)
B	Globin	e1ycbB1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	T: alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	F: Globin	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)
B	1.10.490.10	Mainly Alpha	Orthogonal Bundle	Globin-like	Globins	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00042	Globin (Globin)	Globin		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	MYOGLOBIN	oxygen binding binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors nitrite reductase activity catalytic activity oxygen carrier activity molecular carrier activity peroxidase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor tetrapyrrole binding heme binding oxygen binding binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors nitrite reductase activity catalytic activity oxygen carrier activity molecular carrier activity peroxidase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor tetrapyrrole binding heme binding cation binding ion binding metal ion binding	oxygen transport localization transport gas transport establishment of localization cellular response to stimulus response to stimulus cellular response to oxidative stress detoxification reactive oxygen species metabolic process cellular response to chemical stress response to superoxide cellular oxidant detoxification cellular response to oxygen radical oxygen transport localization transport gas transport establishment of localization cellular response to stimulus response to stimulus cellular response to oxidative stress detoxification reactive oxygen species metabolic process cellular response to chemical stress response to superoxide cellular oxidant detoxification cellular response to oxygen radical cellular response to reactive oxygen species cellular response to stress response to stress cellular detoxification response to oxygen-containing compound cellular response to oxygen-containing compound response to reactive oxygen species response to toxic substance removal of superoxide radicals superoxide metabolic process response to oxidative stress cellular response to chemical stimulus response to chemical cellular response to superoxide metabolic process cellular process cellular response to toxic substance response to oxygen radical multicellular organismal movement musculoskeletal movement multicellular organismal process system process nervous system process neuromuscular process skeletal muscle contraction muscle contraction muscle system process striated muscle contraction	sarcoplasm cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR002335	Myoglobin	Family
A, B	IPR009050	Globin-like superfamily	Homologous Superfamily
A, B	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.

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