3UHJ | pdb_00003uhj

Crystal structure of a probable glycerol dehydrogenase from Sinorhizobium meliloti 1021

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)
H	d3uhjh_	Multi-domain proteins (alpha and beta)	Dehydroquinate synthase-like	Dehydroquinate synthase-like	automated matches	automated matches	(Sinorhizobium meliloti ) [TaxId: 382 ],	SCOPe (2.08)
G	d3uhjg_	Multi-domain proteins (alpha and beta)	Dehydroquinate synthase-like	Dehydroquinate synthase-like	automated matches	automated matches	(Sinorhizobium meliloti ) [TaxId: 382 ],	SCOPe (2.08)
F	d3uhjf_	Multi-domain proteins (alpha and beta)	Dehydroquinate synthase-like	Dehydroquinate synthase-like	automated matches	automated matches	(Sinorhizobium meliloti ) [TaxId: 382 ],	SCOPe (2.08)
E	d3uhje_	Multi-domain proteins (alpha and beta)	Dehydroquinate synthase-like	Dehydroquinate synthase-like	automated matches	automated matches	(Sinorhizobium meliloti ) [TaxId: 382 ],	SCOPe (2.08)
D	d3uhjd_	Multi-domain proteins (alpha and beta)	Dehydroquinate synthase-like	Dehydroquinate synthase-like	automated matches	automated matches	(Sinorhizobium meliloti ) [TaxId: 382 ],	SCOPe (2.08)
C	d3uhjc_	Multi-domain proteins (alpha and beta)	Dehydroquinate synthase-like	Dehydroquinate synthase-like	automated matches	automated matches	(Sinorhizobium meliloti ) [TaxId: 382 ],	SCOPe (2.08)
B	d3uhjb_	Multi-domain proteins (alpha and beta)	Dehydroquinate synthase-like	Dehydroquinate synthase-like	automated matches	automated matches	(Sinorhizobium meliloti ) [TaxId: 382 ],	SCOPe (2.08)
A	d3uhja_	Multi-domain proteins (alpha and beta)	Dehydroquinate synthase-like	Dehydroquinate synthase-like	automated matches	automated matches	(Sinorhizobium meliloti ) [TaxId: 382 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	Dehydroquinate synthase-like	8080099	3001905	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Dehydroquinate synthase-like	8080099	3001905	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Dehydroquinate synthase-like	8080099	3001905	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Dehydroquinate synthase-like	8080099	3001905	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Dehydroquinate synthase-like	8080099	3001905	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Dehydroquinate synthase-like	8080099	3001905	SCOP2B (2022-06-29)
B	SCOP2 Family	Iron-containing alcohol dehydrogenase	8080098	4003591	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Dehydroquinate synthase-like	8080099	3001905	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	Dehydroquinate synthase-like	8080099	3001905	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)
H	Fe-ADH_2	e3uhjH4	A: alpha bundles	X: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	H: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	T: alpha-helical domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_2	ECOD (1.6)
H	Fe-ADH_N	e3uhjH3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Rossmann-like domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_N	ECOD (1.6)
G	Fe-ADH_2	e3uhjG4	A: alpha bundles	X: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	H: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	T: alpha-helical domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_2	ECOD (1.6)
G	Fe-ADH_N	e3uhjG3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Rossmann-like domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_N	ECOD (1.6)
F	Fe-ADH_2	e3uhjF1	A: alpha bundles	X: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	H: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	T: alpha-helical domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_2	ECOD (1.6)
F	Fe-ADH_N	e3uhjF2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Rossmann-like domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_N	ECOD (1.6)
E	Fe-ADH_2	e3uhjE4	A: alpha bundles	X: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	H: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	T: alpha-helical domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_2	ECOD (1.6)
E	Fe-ADH_N	e3uhjE3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Rossmann-like domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_N	ECOD (1.6)
D	Fe-ADH_2	e3uhjD4	A: alpha bundles	X: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	H: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	T: alpha-helical domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_2	ECOD (1.6)
D	Fe-ADH_N	e3uhjD3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Rossmann-like domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_N	ECOD (1.6)
C	Fe-ADH_2	e3uhjC4	A: alpha bundles	X: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	H: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	T: alpha-helical domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_2	ECOD (1.6)
C	Fe-ADH_N	e3uhjC3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Rossmann-like domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_N	ECOD (1.6)
B	Fe-ADH_2	e3uhjB4	A: alpha bundles	X: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	H: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	T: alpha-helical domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_2	ECOD (1.6)
B	Fe-ADH_N	e3uhjB3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Rossmann-like domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_N	ECOD (1.6)
A	Fe-ADH_2	e3uhjA1	A: alpha bundles	X: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	H: alpha-helical domain in dehydroquinate synthase-like enzymes (From Topology)	T: alpha-helical domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_2	ECOD (1.6)
A	Fe-ADH_N	e3uhjA2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Rossmann-like domain in dehydroquinate synthase-like enzymes	F: Fe-ADH_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	3.40.50.1970	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
H	1.20.1090.10	Mainly Alpha	Up-down Bundle	Dehydroquinate synthase-like, alpha domain	Dehydroquinate synthase-like - alpha domain	CATH (4.3.0)
G	3.40.50.1970	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
G	1.20.1090.10	Mainly Alpha	Up-down Bundle	Dehydroquinate synthase-like, alpha domain	Dehydroquinate synthase-like - alpha domain	CATH (4.3.0)
F	3.40.50.1970	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
F	1.20.1090.10	Mainly Alpha	Up-down Bundle	Dehydroquinate synthase-like, alpha domain	Dehydroquinate synthase-like - alpha domain	CATH (4.3.0)
E	3.40.50.1970	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
E	1.20.1090.10	Mainly Alpha	Up-down Bundle	Dehydroquinate synthase-like, alpha domain	Dehydroquinate synthase-like - alpha domain	CATH (4.3.0)
D	3.40.50.1970	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
D	1.20.1090.10	Mainly Alpha	Up-down Bundle	Dehydroquinate synthase-like, alpha domain	Dehydroquinate synthase-like - alpha domain	CATH (4.3.0)
C	3.40.50.1970	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
C	1.20.1090.10	Mainly Alpha	Up-down Bundle	Dehydroquinate synthase-like, alpha domain	Dehydroquinate synthase-like - alpha domain	CATH (4.3.0)
B	3.40.50.1970	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
B	1.20.1090.10	Mainly Alpha	Up-down Bundle	Dehydroquinate synthase-like, alpha domain	Dehydroquinate synthase-like - alpha domain	CATH (4.3.0)
A	3.40.50.1970	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	1.20.1090.10	Mainly Alpha	Up-down Bundle	Dehydroquinate synthase-like, alpha domain	Dehydroquinate synthase-like - alpha domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	PF00465	Iron-containing alcohol dehydrogenase (Fe-ADH)	Iron-containing alcohol dehydrogenase		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H	Probable glycerol dehydrogenase	cation binding ion binding binding metal ion binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor oxidoreductase activity, acting on CH-OH group of donors catalytic activity glycerol dehydrogenase (NAD+) activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR016205	Glycerol dehydrogenase	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR018211	Alcohol dehydrogenase, iron-type, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001670	Alcohol dehydrogenase, iron-type/glycerol dehydrogenase GldA	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 R01GM157729.