1Y07

Crystal structure of the superoxide reductase from Treponema pallidum

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Superoxide reductase-like	8083452	3002044	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Rubredoxin-like	8102717	3001257	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Superoxide reductase-like	8083452	3002044	SCOP2B (2022-06-29)
C	SCOP2 Family	Desulforedoxin	8102716	4003684	SCOP2 (2022-06-29)
C	SCOP2 Family	Superoxide reductase-like	8083451	4007523	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Rubredoxin-like	8102717	3001257	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Superoxide reductase-like	8083452	3002044	SCOP2 (2022-06-29)
D	SCOP2B Superfamily	Rubredoxin-like	8102717	3001257	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Superoxide reductase-like	8083452	3002044	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)
B	PF01880	e1y07B3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF01880	ECOD (1.6)
B	PF22496	e1y07B4	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Desulforedoxin	F: PF22496	ECOD (1.6)
A	PF01880	e1y07A3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF01880	ECOD (1.6)
A	PF22496	e1y07A4	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Desulforedoxin	F: PF22496	ECOD (1.6)
C	PF01880	e1y07C3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF01880	ECOD (1.6)
C	PF22496	e1y07C4	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Desulforedoxin	F: PF22496	ECOD (1.6)
D	PF01880	e1y07D5	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF01880	ECOD (1.6)
D	PF22496	e1y07D6	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Desulforedoxin	F: PF22496	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	6.20.90.10	Special	Other non-globular	SH3 type barrels.		CATH (4.3.0)
B	2.60.40.730	Mainly Beta	Sandwich	Immunoglobulin-like	SOR catalytic domain	CATH (4.3.0)
A	6.20.90.10	Special	Other non-globular	SH3 type barrels.		CATH (4.3.0)
A	2.60.40.730	Mainly Beta	Sandwich	Immunoglobulin-like	SOR catalytic domain	CATH (4.3.0)
C	6.20.90.10	Special	Other non-globular	SH3 type barrels.		CATH (4.3.0)
C	2.60.40.730	Mainly Beta	Sandwich	Immunoglobulin-like	SOR catalytic domain	CATH (4.3.0)
D	6.20.90.10	Special	Other non-globular	SH3 type barrels.		CATH (4.3.0)
D	2.60.40.730	Mainly Beta	Sandwich	Immunoglobulin-like	SOR catalytic domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF01880	Desulfoferrodoxin (Desulfoferrodox)	Desulfoferrodoxin	Desulfoferrodoxins contains two types of iron: an Fe-S4 site very similar to that found in desulforedoxin from Desulfovibrio gigas and an octahedral coordinated high-spin ferrous site most probably with nitrogen/oxygen-containing ligands. Due to this ...	Desulfoferrodoxins contains two types of iron: an Fe-S4 site very similar to that found in desulforedoxin from Desulfovibrio gigas and an octahedral coordinated high-spin ferrous site most probably with nitrogen/oxygen-containing ligands. Due to this rather unusual combination of active centres, this novel protein is named desulfoferrodoxin [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	desulfoferrodoxin (rbo)	oxidoreductase activity catalytic activity cation binding transition metal ion binding iron ion binding ion binding binding metal ion binding small molecule binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036073	Desulfoferrodoxin, ferrous iron-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR002742	Desulfoferrodoxin, ferrous iron-binding domain	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 R01GM133198.