Annotations: 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)
D	SCOP2B Superfamily	Rubredoxin-like	8102717	3001257	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Superoxide reductase-like	8083452	3002044	SCOP2B (2022-06-29)
C	SCOP2 Family	Superoxide reductase-like	8083451	4007523	SCOP2 (2022-06-29)
C	SCOP2 Family	Desulforedoxin	8102716	4003684	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Superoxide reductase-like	8083452	3002044	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Rubredoxin-like	8102717	3001257	SCOP2 (2022-06-29)
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)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	EF-hand_1, EF-hand_5, EF-hand_7	e1y07D5	A: beta barrels	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: EF-hand_1, EF-hand_5, EF-hand_7	ECOD (v294.2)
C	Desulfoferrodox	e1y07C3	A: beta barrels	X: Fusion glycoprotein F2	H: RIFT-related	T: double psi	F: Desulfoferrodox	ECOD (v294.2)
C	ACR_tran	e1y07C4	A: beta barrels	X: Fusion glycoprotein F2	H: RIFT-related	T: double psi	F: ACR_tran	ECOD (v294.2)
B	V-set	e1y07B3	A: beta barrels	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: V-set	ECOD (v294.2)
A	V-set	e1y07A3	A: beta barrels	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: V-set	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
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)
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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF22496	Class III superoxide reductase, N-terminal (SOR_N)	Class III superoxide reductase, N-terminal	This short domain is found at the N-terminal end of class III superoxide reductase from Treponema pallidum (SOR, [swissprot:O83795]), a small protein that catalyse the one -electron reduction of superoxide to hydrogen peroxide, having rubredoxin as t ...	This short domain is found at the N-terminal end of class III superoxide reductase from Treponema pallidum (SOR, [swissprot:O83795]), a small protein that catalyse the one -electron reduction of superoxide to hydrogen peroxide, having rubredoxin as their putative electron donor. It is organised into two distinct domains: an N-terminal (this entry) that shows four beta-strands and a C-terminal that harbours the catalytic site and displays an immunoglobulin-like fold [1].	Domain
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	IPR051233	Desulfoferrodoxin superoxide reductase	Family
A, B, C, D	IPR036073	Desulfoferrodoxin, ferrous iron-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR002742	Desulfoferrodoxin, ferrous iron-binding domain	Domain
A, B, C, D	IPR055252	Class III superoxide reductase, N-terminal	Domain

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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.