3VED | pdb_00003ved

Rhodococcus jostii RHA1 DypB D153H variant in complex with heme

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
C	d3vedc_	Alpha and beta proteins (a+b)	Ferredoxin-like	Dimeric alpha+beta barrel	automated matches	automated matches	(Rhodococcus jostii RHA1 ) [TaxId: 101510 ],	SCOPe (2.08)
B	d3vedb_	Alpha and beta proteins (a+b)	Ferredoxin-like	Dimeric alpha+beta barrel	automated matches	automated matches	(Rhodococcus jostii RHA1 ) [TaxId: 101510 ],	SCOPe (2.08)
A	d3veda_	Alpha and beta proteins (a+b)	Ferredoxin-like	Dimeric alpha+beta barrel	automated matches	automated matches	(Rhodococcus jostii RHA1 ) [TaxId: 101510 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Dimeric alpha+beta barrel	8087115	3000089	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Dimeric alpha+beta barrel	8090937	3000089	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Dimeric alpha+beta barrel	8087115	3000089	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Dimeric alpha+beta barrel	8090937	3000089	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Dimeric alpha+beta barrel	8087115	3000089	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Dimeric alpha+beta barrel	8090937	3000089	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)
C	Dyp_perox_C	e3vedC3	A: a+b two layers	X: Alpha-beta plaits	H: Dimeric alpha+beta barrel (From Topology)	T: Dimeric alpha+beta barrel	F: Dyp_perox_C	ECOD (1.6)
C	Dyp_perox_N_1	e3vedC2	A: a+b two layers	X: Alpha-beta plaits	H: Dimeric alpha+beta barrel (From Topology)	T: Dimeric alpha+beta barrel	F: Dyp_perox_N_1	ECOD (1.6)
B	Dyp_perox_C	e3vedB3	A: a+b two layers	X: Alpha-beta plaits	H: Dimeric alpha+beta barrel (From Topology)	T: Dimeric alpha+beta barrel	F: Dyp_perox_C	ECOD (1.6)
B	Dyp_perox_N_1	e3vedB2	A: a+b two layers	X: Alpha-beta plaits	H: Dimeric alpha+beta barrel (From Topology)	T: Dimeric alpha+beta barrel	F: Dyp_perox_N_1	ECOD (1.6)
A	Dyp_perox_C	e3vedA3	A: a+b two layers	X: Alpha-beta plaits	H: Dimeric alpha+beta barrel (From Topology)	T: Dimeric alpha+beta barrel	F: Dyp_perox_C	ECOD (1.6)
A	Dyp_perox_N_1	e3vedA2	A: a+b two layers	X: Alpha-beta plaits	H: Dimeric alpha+beta barrel (From Topology)	T: Dimeric alpha+beta barrel	F: Dyp_perox_N_1	ECOD (1.6)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	DypB	peroxidase activity oxidoreductase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor catalytic activity binding tetrapyrrole binding heme binding cation binding ion binding metal ion binding small molecule binding	-	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR048327	Dyp-type peroxidase, N-terminal domain	Domain
A, B, C	IPR006314	Dyp-type peroxidase	Family
A, B, C	IPR048328	Dyp-type peroxidase, C-terminal domain	Domain
A, B, C	IPR011008	Dimeric alpha-beta barrel	Homologous Superfamily

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.