1VDH | pdb_00001vdh

Structure-based functional identification of a novel heme-binding protein from thermus thermophilus HB8

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)
E	d1vdhe_	Alpha and beta proteins (a+b)	Ferredoxin-like	Dimeric alpha+beta barrel	Chlorite dismutase-like	Polyketide synthase CurD homologue TTHA1714/TTC1352	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
D	d1vdhd_	Alpha and beta proteins (a+b)	Ferredoxin-like	Dimeric alpha+beta barrel	Chlorite dismutase-like	Polyketide synthase CurD homologue TTHA1714/TTC1352	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
C	d1vdhc_	Alpha and beta proteins (a+b)	Ferredoxin-like	Dimeric alpha+beta barrel	Chlorite dismutase-like	Polyketide synthase CurD homologue TTHA1714/TTC1352	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
B	d1vdhb_	Alpha and beta proteins (a+b)	Ferredoxin-like	Dimeric alpha+beta barrel	Chlorite dismutase-like	Polyketide synthase CurD homologue TTHA1714/TTC1352	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
A	d1vdha_	Alpha and beta proteins (a+b)	Ferredoxin-like	Dimeric alpha+beta barrel	Chlorite dismutase-like	Polyketide synthase CurD homologue TTHA1714/TTC1352	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E	SCOP2B Superfamily	Dimeric alpha+beta barrel	8090928	3000089	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Dimeric alpha+beta barrel	8041288	3000089	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Dimeric alpha+beta barrel	8041288	3000089	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Dimeric alpha+beta barrel	8090928	3000089	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Dimeric alpha+beta barrel	8041288	3000089	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Dimeric alpha+beta barrel	8090928	3000089	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Dimeric alpha+beta barrel	8041288	3000089	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Dimeric alpha+beta barrel	8090928	3000089	SCOP2B (2022-06-29)
A	SCOP2 Family	Chlorite dismutase-like	8028909	4002645	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Dimeric alpha+beta barrel	8041288	3000089	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Dimeric alpha+beta barrel	8090928	3000089	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)
E	tRNA-synt_1b	e1vdhE1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: tRNA-synt_1b	ECOD (v294.1)
D	tRNA-synt_1b	e1vdhD1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: tRNA-synt_1b	ECOD (v294.1)
C	tRNA-synt_1b	e1vdhC1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: tRNA-synt_1b	ECOD (v294.1)
B	tRNA-synt_1b	e1vdhB1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: tRNA-synt_1b	ECOD (v294.1)
A	tRNA-synt_1b	e1vdhA1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: winged helix domain	F: tRNA-synt_1b	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	3.30.70.1030	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Apc35880	CATH (4.3.0)
D	3.30.70.1030	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Apc35880	CATH (4.3.0)
C	3.30.70.1030	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Apc35880	CATH (4.3.0)
B	3.30.70.1030	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Apc35880	CATH (4.3.0)
A	3.30.70.1030	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Apc35880	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E	PF06778	Chlorite dismutase (Chlor_dismutase)	Chlorite dismutase	This family contains chlorite dismutase enzymes of bacterial and archaeal origin. This enzyme catalyses the disproportionation of chlorite into chloride and oxygen [1]. Note that many family members are hypothetical proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E	muconolactone isomerase-like protein	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	heme metabolic process pigment metabolic process porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process heme biosynthetic process pigment biosynthetic process tetrapyrrole biosynthetic process biosynthetic process metabolic process cellular process porphyrin-containing compound metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E	IPR031332	Coproheme decarboxylase	Family
A, B, C, D, E	IPR010644	Heme-dependent peroxidase ChdC/CLD	Family
A, B, C, D, E	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.