2V4J

THE CRYSTAL STRUCTURE OF Desulfovibrio vulgaris DISSIMILATORY SULFITE REDUCTASE BOUND TO DsrC PROVIDES NOVEL INSIGHTS INTO THE MECHANISM OF SULFATE RESPIRATION

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)
A	d2v4ja1	Alpha and beta proteins (a+b)	Ferredoxin-like	4Fe-4S ferredoxins	Ferredoxin domains from multidomain proteins	DsrA insert domain	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
A	d2v4ja2	Alpha and beta proteins (a+b)	Ferredoxin-like	Nitrite/Sulfite reductase N-terminal domain-like	DsrA/DsrB N-terminal-domain-like	Dissimilatory sulfite reductase subunit alpha, DsrA	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
A	d2v4ja3	Alpha and beta proteins (a+b)	Nitrite and sulphite reductase 4Fe-4S domain-like	Nitrite and sulphite reductase 4Fe-4S domain-like	Nitrite and sulphite reductase 4Fe-4S domain-like	Dissimilatory sulfite reductase subunit alpha, DsrA	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
D	d2v4jd1	Alpha and beta proteins (a+b)	Ferredoxin-like	4Fe-4S ferredoxins	Ferredoxin domains from multidomain proteins	DsrA insert domain	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
D	d2v4jd2	Alpha and beta proteins (a+b)	Ferredoxin-like	Nitrite/Sulfite reductase N-terminal domain-like	DsrA/DsrB N-terminal-domain-like	Dissimilatory sulfite reductase subunit alpha, DsrA	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
D	d2v4jd3	Alpha and beta proteins (a+b)	Nitrite and sulphite reductase 4Fe-4S domain-like	Nitrite and sulphite reductase 4Fe-4S domain-like	Nitrite and sulphite reductase 4Fe-4S domain-like	Dissimilatory sulfite reductase subunit alpha, DsrA	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
B	d2v4jb1	Alpha and beta proteins (a+b)	Ferredoxin-like	4Fe-4S ferredoxins	Ferredoxin domains from multidomain proteins	DsrB insert domain	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
B	d2v4jb2	Alpha and beta proteins (a+b)	Ferredoxin-like	Nitrite/Sulfite reductase N-terminal domain-like	DsrA/DsrB N-terminal-domain-like	Dissimilatory sulfite reductase subunit beta, DsrB	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
B	d2v4jb3	Alpha and beta proteins (a+b)	Nitrite and sulphite reductase 4Fe-4S domain-like	Nitrite and sulphite reductase 4Fe-4S domain-like	Nitrite and sulphite reductase 4Fe-4S domain-like	Dissimilatory sulfite reductase subunit beta, DsrB	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
E	d2v4je1	Alpha and beta proteins (a+b)	Ferredoxin-like	4Fe-4S ferredoxins	Ferredoxin domains from multidomain proteins	DsrB insert domain	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
E	d2v4je2	Alpha and beta proteins (a+b)	Ferredoxin-like	Nitrite/Sulfite reductase N-terminal domain-like	DsrA/DsrB N-terminal-domain-like	Dissimilatory sulfite reductase subunit beta, DsrB	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
E	d2v4je3	Alpha and beta proteins (a+b)	Nitrite and sulphite reductase 4Fe-4S domain-like	Nitrite and sulphite reductase 4Fe-4S domain-like	Nitrite and sulphite reductase 4Fe-4S domain-like	Dissimilatory sulfite reductase subunit beta, DsrB	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
C	d2v4jc1	Alpha and beta proteins (a+b)	DsrC, the gamma subunit of dissimilatory sulfite reductase	DsrC, the gamma subunit of dissimilatory sulfite reductase	DsrC, the gamma subunit of dissimilatory sulfite reductase	DsrC, the gamma subunit of dissimilatory sulfite reductase	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)
F	d2v4jf_	Alpha and beta proteins (a+b)	DsrC, the gamma subunit of dissimilatory sulfite reductase	DsrC, the gamma subunit of dissimilatory sulfite reductase	automated matches	automated matches	(Nitratidesulfovibrio vulgaris str. Hildenborough ) [TaxId: 882 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Ferredoxin domains from multidomain proteins	8024851	4000021	SCOP2 (2022-06-29)
A	SCOP2 Family	DsrA/DsrB N-terminal-domain-like	8024853	4001952	SCOP2 (2022-06-29)
A	SCOP2 Family	Nitrite and sulphite reductase 4Fe-4S domain-like	8024856	4001988	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	4Fe-4S ferredoxins	8037230	3000020	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Nitrite/Sulfite reductase N-terminal domain-like	8037232	3001366	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Nitrite and sulphite reductase 4Fe-4S domain-like	8037235	3000646	SCOP2 (2022-06-29)
D	SCOP2B Superfamily	Nitrite/Sulfite reductase N-terminal domain-like	8037232	3001366	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Nitrite and sulphite reductase 4Fe-4S domain-like	8037235	3000646	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	4Fe-4S ferredoxins	8037230	3000020	SCOP2B (2022-06-29)
B	SCOP2 Family	Ferredoxin domains from multidomain proteins	8024859	4000021	SCOP2 (2022-06-29)
B	SCOP2 Family	DsrA/DsrB N-terminal-domain-like	8024860	4001952	SCOP2 (2022-06-29)
B	SCOP2 Family	Nitrite and sulphite reductase 4Fe-4S domain-like	8024862	4001988	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	4Fe-4S ferredoxins	8037238	3000020	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Nitrite/Sulfite reductase N-terminal domain-like	8037239	3001366	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Nitrite and sulphite reductase 4Fe-4S domain-like	8037241	3000646	SCOP2 (2022-06-29)
E	SCOP2B Superfamily	Nitrite and sulphite reductase 4Fe-4S domain-like	8037241	3000646	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	4Fe-4S ferredoxins	8037238	3000020	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Nitrite/Sulfite reductase N-terminal domain-like	8037239	3001366	SCOP2B (2022-06-29)
C	SCOP2 Family	DsrC, the gamma subunit of dissimilatory sulfite reductase	8024863	4003436	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	DsrC, the gamma subunit of dissimilatory sulfite reductase	8037242	3000863	SCOP2 (2022-06-29)
F	SCOP2B Superfamily	DsrC, the gamma subunit of dissimilatory sulfite reductase	8037242	3000863	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	dsrA	e2v4jA2	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: dsrA	ECOD (1.6)
A	NIR_SIR_ferr	e2v4jA7	A: a+b two layers	X: Alpha-beta plaits	H: Sulfite reductase, domains 1 and 3 (From Topology)	T: Sulfite reductase, domains 1 and 3	F: NIR_SIR_ferr	ECOD (1.6)
A	NIR_SIR	e2v4jA8	A: a+b three layers	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: NIR_SIR	ECOD (1.6)
D	dsrA	e2v4jD2	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: dsrA	ECOD (1.6)
D	NIR_SIR_ferr	e2v4jD7	A: a+b two layers	X: Alpha-beta plaits	H: Sulfite reductase, domains 1 and 3 (From Topology)	T: Sulfite reductase, domains 1 and 3	F: NIR_SIR_ferr	ECOD (1.6)
D	NIR_SIR	e2v4jD8	A: a+b three layers	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: NIR_SIR	ECOD (1.6)
B	Fer4_7	e2v4jB11	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: Fer4_7	ECOD (1.6)
B	NIR_SIR_ferr	e2v4jB10	A: a+b two layers	X: Alpha-beta plaits	H: Sulfite reductase, domains 1 and 3 (From Topology)	T: Sulfite reductase, domains 1 and 3	F: NIR_SIR_ferr	ECOD (1.6)
B	NIR_SIR	e2v4jB12	A: a+b three layers	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: NIR_SIR	ECOD (1.6)
E	Fer4_7	e2v4jE11	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: Fer4_7	ECOD (1.6)
E	NIR_SIR_ferr	e2v4jE10	A: a+b two layers	X: Alpha-beta plaits	H: Sulfite reductase, domains 1 and 3 (From Topology)	T: Sulfite reductase, domains 1 and 3	F: NIR_SIR_ferr	ECOD (1.6)
E	NIR_SIR	e2v4jE12	A: a+b three layers	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: NIR_SIR	ECOD (1.6)
C	DsrC	e2v4jC1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: DsrC	ECOD (1.6)
F	DsrC	e2v4jF1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: DsrC	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	6.10.140.1420	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
A	3.30.70.2500	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
A	3.30.413.10	Alpha Beta	2-Layer Sandwich	Sulfite Reductase Hemoprotein	domain 1	CATH (4.3.0)
A	3.30.70.20	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
D	6.10.140.1420	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
D	3.30.70.2500	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
D	3.30.413.10	Alpha Beta	2-Layer Sandwich	Sulfite Reductase Hemoprotein	domain 1	CATH (4.3.0)
D	3.30.70.20	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
B	3.30.70.3340	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
B	3.30.413.10	Alpha Beta	2-Layer Sandwich	Sulfite Reductase Hemoprotein	domain 1	CATH (4.3.0)
B	3.30.70.20	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
E	3.30.70.3340	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
E	3.30.413.10	Alpha Beta	2-Layer Sandwich	Sulfite Reductase Hemoprotein	domain 1	CATH (4.3.0)
E	3.30.70.20	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
C	3.30.1420.10	Alpha Beta	2-Layer Sandwich	Dissimilatory Siroheme-sulfite Reductase	Chain: A	CATH (4.3.0)
C	1.10.10.370	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	DsrC protein, C-terminal domain	CATH (4.3.0)
F	3.30.1420.10	Alpha Beta	2-Layer Sandwich	Dissimilatory Siroheme-sulfite Reductase	Chain: A	CATH (4.3.0)
F	1.10.10.370	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	DsrC protein, C-terminal domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D	PF01077	Nitrite and sulphite reductase 4Fe-4S domain (NIR_SIR)	Nitrite and sulphite reductase 4Fe-4S domain	-	Family
B, E	PF03460	Nitrite/Sulfite reductase ferredoxin-like half domain (NIR_SIR_ferr)	Nitrite/Sulfite reductase ferredoxin-like half domain	-	Repeat
B, E	PF01077	Nitrite and sulphite reductase 4Fe-4S domain (NIR_SIR)	Nitrite and sulphite reductase 4Fe-4S domain	-	Family
C, F	PF04358	DsrC like protein (DsrC)	DsrC like protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D	SULFITE REDUCTASE, DISSIMILATORY-TYPE SUBUNIT ALPHA	oxidoreductase activity, acting on a sulfur group of donors oxidoreductase activity dissimilatory sulfite reductase (NADH) activity catalytic activity oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor binding tetrapyrrole binding heme binding sulfite reductase activity oxidoreductase activity, acting on a sulfur group of donors, iron-sulfur protein as acceptor sulfite reductase (ferredoxin) activity iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding oxidoreductase activity, acting on a sulfur group of donors oxidoreductase activity dissimilatory sulfite reductase (NADH) activity catalytic activity oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor binding tetrapyrrole binding heme binding sulfite reductase activity oxidoreductase activity, acting on a sulfur group of donors, iron-sulfur protein as acceptor sulfite reductase (ferredoxin) activity iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	sulfate assimilation sulfur compound metabolic process metabolic process cellular process	protein-containing complex catalytic complex sulfite reductase complex (NADPH) intracellular protein-containing complex
B, E	SULFITE REDUCTASE, DISSIMILATORY-TYPE SUBUNIT BETA	oxidoreductase activity, acting on a sulfur group of donors oxidoreductase activity dissimilatory sulfite reductase (NADH) activity catalytic activity oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor binding tetrapyrrole binding heme binding sulfite reductase activity oxidoreductase activity, acting on a sulfur group of donors, iron-sulfur protein as acceptor sulfite reductase (ferredoxin) activity iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding oxidoreductase activity, acting on a sulfur group of donors oxidoreductase activity dissimilatory sulfite reductase (NADH) activity catalytic activity oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor binding tetrapyrrole binding heme binding sulfite reductase activity oxidoreductase activity, acting on a sulfur group of donors, iron-sulfur protein as acceptor sulfite reductase (ferredoxin) activity iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding electron transfer activity cation binding ion binding metal ion binding	sulfate assimilation sulfur compound metabolic process metabolic process cellular process	protein-containing complex catalytic complex sulfite reductase complex (NADPH) intracellular protein-containing complex
C, F	SULFITE REDUCTASE, DISSIMILATORY-TYPE SUBUNIT GAMMA	sulfur carrier activity molecular carrier activity oxidoreductase activity, acting on a sulfur group of donors oxidoreductase activity dissimilatory sulfite reductase (NADH) activity catalytic activity oxidoreductase activity, acting on a sulfur group of donors, NAD(P) as acceptor	tRNA thio-modification RNA metabolic process tRNA wobble uridine modification nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process tRNA processing tRNA wobble base modification RNA processing tRNA modification primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process tRNA thio-modification RNA metabolic process tRNA wobble uridine modification nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process tRNA processing tRNA wobble base modification RNA processing tRNA modification primary metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process tRNA metabolic process RNA modification biosynthetic process macromolecule modification metabolic process cellular process macromolecule metabolic process tRNA wobble position uridine thiolation	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D	IPR006067	Nitrite/sulphite reductase 4Fe-4S domain	Domain
A, D	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
A, D	IPR045854	Nitrite and sulphite reductase 4Fe-4S domain-like superfamily	Homologous Superfamily
A, D	IPR036136	Nitrite/Sulfite reductase ferredoxin-like domain superfamily	Homologous Superfamily
A, D	IPR045169	Nitrite and sulphite reductase 4Fe-4S domain containing protein	Family
A, D	IPR011806	Sulphite reductase, dissimilatory-type alpha subunit	Family
B, E	IPR005117	Nitrite/Sulfite reductase ferredoxin-like domain	Domain
B, E	IPR011808	Sulphite reductase, dissimilatory-type beta subunit	Family
B, E	IPR017900	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Conserved Site
B, E	IPR006067	Nitrite/sulphite reductase 4Fe-4S domain	Domain
B, E	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
B, E	IPR045854	Nitrite and sulphite reductase 4Fe-4S domain-like superfamily	Homologous Superfamily
B, E	IPR036136	Nitrite/Sulfite reductase ferredoxin-like domain superfamily	Homologous Superfamily
B, E	IPR045169	Nitrite and sulphite reductase 4Fe-4S domain containing protein	Family
C, F	IPR043163	DsrC-like protein, N-terminal domain	Homologous Superfamily
C, F	IPR025526	DsrC-like domain superfamily	Homologous Superfamily
C, F	IPR042072	DsrC-like protein, C-terminal domain	Homologous Superfamily
C, F	IPR007453	Sulphur transfer protein DsrC/TusE	Family