2HYB | pdb_00002hyb

Crystal Structure of Hexameric DsrEFH

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)
R	d2hybr_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrH-like	DsrH	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
O	d2hybo_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrH-like	DsrH	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
L	d2hybl_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrH-like	DsrH	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
I	d2hybi_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrH-like	DsrH	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
F	d2hybf_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrH-like	DsrH	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
C	d2hybc_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrH-like	DsrH	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
Q	d2hybq_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Intracellular sulfur oxidation protein DsrF	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
N	d2hybn_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Intracellular sulfur oxidation protein DsrF	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
K	d2hybk_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Intracellular sulfur oxidation protein DsrF	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
H	d2hybh_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Intracellular sulfur oxidation protein DsrF	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
E	d2hybe_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Intracellular sulfur oxidation protein DsrF	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
B	d2hybb_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Intracellular sulfur oxidation protein DsrF	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
P	d2hybp_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Sulfurtransferase DsrE	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
M	d2hybm_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Sulfurtransferase DsrE	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
J	d2hybj_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Sulfurtransferase DsrE	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
G	d2hybg_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Sulfurtransferase DsrE	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
D	d2hybd_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Sulfurtransferase DsrE	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)
A	d2hyba_	Alpha and beta proteins (a/b)	DsrEFH-like	DsrEFH-like	DsrEF-like	Sulfurtransferase DsrE	(Allochromatium vinosum ) [TaxId: 1049 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
R	SCOP2B Superfamily	DsrEFH-like	8042492	3001075	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	DsrEFH-like	8042492	3001075	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	DsrEFH-like	8042492	3001075	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	DsrEFH-like	8042492	3001075	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	DsrEFH-like	8042492	3001075	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	DsrEFH-like	8042492	3001075	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	DsrEFH-like	8042491	3001075	SCOP2B (2022-06-29)
N	SCOP2B Superfamily	DsrEFH-like	8042491	3001075	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	DsrEFH-like	8042491	3001075	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	DsrEFH-like	8042491	3001075	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	DsrEFH-like	8042491	3001075	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DsrEFH-like	8042491	3001075	SCOP2B (2022-06-29)
P	SCOP2B Superfamily	DsrEFH-like	8042490	3001075	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	DsrEFH-like	8042490	3001075	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	DsrEFH-like	8042490	3001075	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	DsrEFH-like	8042490	3001075	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	DsrEFH-like	8042490	3001075	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	DsrEFH-like	8042490	3001075	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)
R	DsrH	e2hybR1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DsrH	ECOD (1.6)
O	DsrH	e2hybO1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DsrH	ECOD (1.6)
L	DsrH	e2hybL1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DsrH	ECOD (1.6)
I	DsrH	e2hybI1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DsrH	ECOD (1.6)
F	DsrH	e2hybF1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DsrH	ECOD (1.6)
C	DsrH	e2hybC1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DsrH	ECOD (1.6)
Q	DrsE	e2hybQ1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
N	DrsE	e2hybN1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
K	DrsE	e2hybK1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
H	DrsE	e2hybH1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
E	DrsE	e2hybE1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
B	DrsE	e2hybB1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
P	DrsE	e2hybP1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
M	DrsE	e2hybM1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
J	DrsE	e2hybJ1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
G	DrsE	e2hybG1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
D	DrsE	e2hybD1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)
A	DrsE	e2hybA1	A: a/b three-layered sandwiches	X: YchN-like (From Topology)	H: YchN-like (From Topology)	T: YchN-like	F: DrsE	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
R	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
O	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
L	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
I	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
F	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
C	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
Q	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
N	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
K	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
H	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
E	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
B	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
P	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
M	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
J	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
G	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
D	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)
A	3.40.1260.10	Alpha Beta	3-Layer(aba) Sandwich	Hypothetical Protein Ychn	Chain: A,	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, F, I, L, O C, F, I, L, O, R	PF04077	DsrH like protein (DsrH)	DsrH like protein	DsrH is involved in oxidation of intracellular sulphur in the phototrophic sulphur bacterium Chromatium vinosum D [1].	Domain
B, E, H, K, N B, E, H, K, N, Q	PF02635	DsrE/DsrF-like family (DsrE)	DsrE/DsrF-like family	DsrE is a small soluble protein involved in intracellular sulfur reduction [1]. This family also includes DsrF and the homologues TusD/C. n E. coli, the DsrEFH homologue TusBCD interacts with the DsrC homologue TusE in a sulfur relay system during 2- ...	DsrE is a small soluble protein involved in intracellular sulfur reduction [1]. This family also includes DsrF and the homologues TusD/C. n E. coli, the DsrEFH homologue TusBCD interacts with the DsrC homologue TusE in a sulfur relay system during 2-thiouridine biosynthesis [2].	Domain
A, D, G, J, M A, D, G, J, M, P	PF02635	DsrE/DsrF-like family (DsrE)	DsrE/DsrF-like family	DsrE is a small soluble protein involved in intracellular sulfur reduction [1]. This family also includes DsrF and the homologues TusD/C. n E. coli, the DsrEFH homologue TusBCD interacts with the DsrC homologue TusE in a sulfur relay system during 2- ...	DsrE is a small soluble protein involved in intracellular sulfur reduction [1]. This family also includes DsrF and the homologues TusD/C. n E. coli, the DsrEFH homologue TusBCD interacts with the DsrC homologue TusE in a sulfur relay system during 2-thiouridine biosynthesis [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, F, I, L, O C, F, I, L, O, R	DsrH	-	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	protein-containing complex cellular anatomical structure intracellular anatomical structure catalytic complex sulfurtransferase complex transferase complex cytoplasm cytosol
B, E, H, K, N B, E, H, K, N, Q	Intracellular sulfur oxidation protein dsrF	-	-	-
A, D, G, J, M A, D, G, J, M, P	Putative sulfurtransferase dsrE	sulfur carrier activity molecular carrier activity sulfurtransferase activity transferase activity, transferring sulphur-containing groups transferase activity catalytic activity	sulfur compound metabolic process metabolic process cellular process sulfur oxidation 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 sulfur compound metabolic process metabolic process cellular process sulfur oxidation 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 macromolecule metabolic process tRNA wobble position uridine thiolation	protein-containing complex cellular anatomical structure intracellular anatomical structure catalytic complex sulfurtransferase complex transferase complex cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, F, I, L, O C, F, I, L, O, R	IPR007215	Sulphur relay, TusB/DsrH	Family
C, F, I, L, O C, F, I, L, O, R	IPR027396	DsrEFH-like	Homologous Superfamily
B, E, H, K, N B, E, H, K, N, Q	IPR027396	DsrEFH-like	Homologous Superfamily
B, E, H, K, N B, E, H, K, N, Q	IPR003787	Sulphur relay, DsrE/F-like	Family
B, E, H, K, N B, E, H, K, N, Q	IPR017462	Sulphur relay, TusC/DsrF	Family
A, D, G, J, M A, D, G, J, M, P	IPR027396	DsrEFH-like	Homologous Superfamily
A, D, G, J, M A, D, G, J, M, P	IPR017463	Sulphur relay, TusD/DsrE	Family
A, D, G, J, M A, D, G, J, M, P	IPR003787	Sulphur relay, DsrE/F-like	Family

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.