2VPY | pdb_00002vpy

Polysulfide reductase with bound quinone inhibitor, pentachlorophenol (PCP)

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	4Fe-4S ferredoxins	8087201	3000020	SCOP2B (2022-06-29)
E [auth F]	SCOP2B Superfamily	4Fe-4S ferredoxins	8087201	3000020	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	Leuk-A4-hydro_C	e2vpyA1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Leuk-A4-hydro_C	ECOD (v294.1)
A	LRR_8	e2vpyA2	A: a/b three-layered sandwiches	X: Hsp90 co-chaperone CDC37 middle domain	H: Lysozyme-like	T: Lysozyme-like	F: LRR_8	ECOD (v294.1)
D [auth E]	Leuk-A4-hydro_C	e2vpyE1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Leuk-A4-hydro_C	ECOD (v294.1)
D [auth E]	LRR_8	e2vpyE2	A: a/b three-layered sandwiches	X: Hsp90 co-chaperone CDC37 middle domain	H: Lysozyme-like	T: Lysozyme-like	F: LRR_8	ECOD (v294.1)
B	Vinculin	e2vpyB1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Osmotin-like	T: Osmotin-like	F: Vinculin	ECOD (v294.1)
E [auth F]	Vinculin	e2vpyF1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Osmotin-like	T: Osmotin-like	F: Vinculin	ECOD (v294.1)
C	Leuk-A4-hydro_C	e2vpyC1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Leuk-A4-hydro_C	ECOD (v294.1)
F [auth G]	Leuk-A4-hydro_C	e2vpyG1	A: a/b three-layered sandwiches	X: HTH	H: Nudix	T: Nudix	F: Leuk-A4-hydro_C	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.20.25.90	Mainly Beta	Single Sheet	N-terminal domain of TfIIb	ADC-like domains	CATH (4.3.0)
A	3.40.50.740	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	3.40.228.10	Alpha Beta	3-Layer(aba) Sandwich	Dimethylsulfoxide Reductase	domain 2	CATH (4.3.0)
A	3.30.2070.10	Alpha Beta	2-Layer Sandwich	Formate dehydrogenase/DMSO reductase,	Formate dehydrogenase/DMSO reductase,	CATH (4.3.0)
A	2.40.40.20	Mainly Beta	Beta Barrel	Barwin-like endoglucanases		CATH (4.3.0)
D [auth E]	2.20.25.90	Mainly Beta	Single Sheet	N-terminal domain of TfIIb	ADC-like domains	CATH (4.3.0)
D [auth E]	3.40.50.740	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
D [auth E]	3.40.228.10	Alpha Beta	3-Layer(aba) Sandwich	Dimethylsulfoxide Reductase	domain 2	CATH (4.3.0)
D [auth E]	3.30.2070.10	Alpha Beta	2-Layer Sandwich	Formate dehydrogenase/DMSO reductase,	Formate dehydrogenase/DMSO reductase,	CATH (4.3.0)
D [auth E]	2.40.40.20	Mainly Beta	Beta Barrel	Barwin-like endoglucanases		CATH (4.3.0)
B	3.30.70.20	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
E [auth F]	3.30.70.20	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
C	1.20.1630.10	Mainly Alpha	Up-down Bundle	Formate dehydrogenase/DMSO reductase fold	Formate dehydrogenase/DMSO reductase domain	CATH (4.3.0)
F [auth G]	1.20.1630.10	Mainly Alpha	Up-down Bundle	Formate dehydrogenase/DMSO reductase fold	Formate dehydrogenase/DMSO reductase domain	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D [auth E]	THIOSULFATE REDUCTASE	oxidoreductase activity catalytic activity binding molybdopterin cofactor binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	-	-
B, E [auth F]	NRFC PROTEIN	iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding electron transfer activity cation binding ion binding metal ion binding	-	-
C, F [auth G]	HYPOTHETICAL MEMBRANE SPANNING PROTEIN	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D [auth E]	IPR050612	Prokaryotic Molybdopterin Oxidoreductases	Family
A, D [auth E]	IPR006963	Molybdopterin oxidoreductase, 4Fe-4S domain	Domain
A, D [auth E]	IPR006657	Molybdopterin dinucleotide-binding domain	Domain
A, D [auth E]	IPR006656	Molybdopterin oxidoreductase	Domain
A, D [auth E]	IPR006311	Twin-arginine translocation pathway, signal sequence	Conserved Site
A, D [auth E]	IPR009010	Aspartate decarboxylase-like domain superfamily	Homologous Superfamily
A, D [auth E]	IPR019546	Twin-arginine translocation pathway, signal sequence, bacterial/archaeal	Conserved Site
B, E [auth F]	IPR017900	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Conserved Site
B, E [auth F]	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
B, E [auth F]	IPR000813	7Fe ferredoxin	Family
B, E [auth F]	IPR050954	Electron transfer iron-sulfur cluster-binding protein	Family
C, F [auth G]	IPR032796	Polysulfide reductase	Family

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
C, F [auth G]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
C, F [auth G]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Mo/Wbis-MGD Oxidoreductases	Polysulfide Reductase PsrABC (native)

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.