1XRH | pdb_00001xrh

Crystal Structure of Ureidoglycolate Dehydrogenase from Escherichia Coli

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	d1xrha1	Alpha and beta proteins (a/b)	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	Ureidoglycolate dehydrogenase AllD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
A	d1xrha2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1xrhb1	Alpha and beta proteins (a/b)	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	Ureidoglycolate dehydrogenase AllD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
B	d1xrhb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d1xrhd1	Alpha and beta proteins (a/b)	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	Ureidoglycolate dehydrogenase AllD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
D	d1xrhd2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E	d1xrhe1	Alpha and beta proteins (a/b)	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	Ureidoglycolate dehydrogenase AllD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
E	d1xrhe2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F	d1xrhf1	Alpha and beta proteins (a/b)	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	Ureidoglycolate dehydrogenase AllD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F	d1xrhf2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
G	d1xrhg1	Alpha and beta proteins (a/b)	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	Ureidoglycolate dehydrogenase AllD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
G	d1xrhg2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
H	d1xrhh1	Alpha and beta proteins (a/b)	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	Ureidoglycolate dehydrogenase AllD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
H	d1xrhh2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1xrhc1	Alpha and beta proteins (a/b)	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	L-sulfolactate dehydrogenase-like	Ureidoglycolate dehydrogenase AllD	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
C	d1xrhc2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	L-sulfolactate dehydrogenase-like	8031758	4000529	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	L-sulfolactate dehydrogenase-like	8044136	3000527	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	L-sulfolactate dehydrogenase-like	8044136	3000527	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	L-sulfolactate dehydrogenase-like	8044136	3000527	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	L-sulfolactate dehydrogenase-like	8044136	3000527	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	L-sulfolactate dehydrogenase-like	8044136	3000527	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	L-sulfolactate dehydrogenase-like	8044136	3000527	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	L-sulfolactate dehydrogenase-like	8044136	3000527	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	L-sulfolactate dehydrogenase-like	8044136	3000527	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	Ldh_2	e1xrhA1	A: a+b three layers	X: L-sulfolactate dehydrogenase-like	H: L-sulfolactate dehydrogenase-like	T: L-sulfolactate dehydrogenase-like	F: Ldh_2	ECOD (v294.1)
B	Amidase_2	e1xrhB1	A: a/b three-layered sandwiches	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: Amidase_2	ECOD (v294.1)
D	Amidase_2	e1xrhD1	A: a/b three-layered sandwiches	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: Amidase_2	ECOD (v294.1)
E	Amidase_2	e1xrhE1	A: a/b three-layered sandwiches	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: Amidase_2	ECOD (v294.1)
F	Amidase_2	e1xrhF1	A: a/b three-layered sandwiches	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: Amidase_2	ECOD (v294.1)
G	Amidase_2	e1xrhG1	A: a/b three-layered sandwiches	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: Amidase_2	ECOD (v294.1)
H	Amidase_2	e1xrhH1	A: a/b three-layered sandwiches	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: Amidase_2	ECOD (v294.1)
C	Amidase_2	e1xrhC1	A: a/b three-layered sandwiches	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: Amidase_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.1530.10	Mainly Alpha	Orthogonal Bundle	Hypothetical Oxidoreductase Yiak	Chain: A, domain 1	CATH (4.3.0)
A	3.30.1370.60	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
B	1.10.1530.10	Mainly Alpha	Orthogonal Bundle	Hypothetical Oxidoreductase Yiak	Chain: A, domain 1	CATH (4.3.0)
B	3.30.1370.60	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
D	1.10.1530.10	Mainly Alpha	Orthogonal Bundle	Hypothetical Oxidoreductase Yiak	Chain: A, domain 1	CATH (4.3.0)
D	3.30.1370.60	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
E	1.10.1530.10	Mainly Alpha	Orthogonal Bundle	Hypothetical Oxidoreductase Yiak	Chain: A, domain 1	CATH (4.3.0)
E	3.30.1370.60	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
F	1.10.1530.10	Mainly Alpha	Orthogonal Bundle	Hypothetical Oxidoreductase Yiak	Chain: A, domain 1	CATH (4.3.0)
F	3.30.1370.60	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
G	1.10.1530.10	Mainly Alpha	Orthogonal Bundle	Hypothetical Oxidoreductase Yiak	Chain: A, domain 1	CATH (4.3.0)
G	3.30.1370.60	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
H	1.10.1530.10	Mainly Alpha	Orthogonal Bundle	Hypothetical Oxidoreductase Yiak	Chain: A, domain 1	CATH (4.3.0)
H	3.30.1370.60	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.3.0)
C	1.10.1530.10	Mainly Alpha	Orthogonal Bundle	Hypothetical Oxidoreductase Yiak	Chain: A, domain 1	CATH (4.3.0)
C	3.30.1370.60	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	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	PF02615	Malate/L-lactate dehydrogenase (Ldh_2)	Malate/L-lactate dehydrogenase	-	Family

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	Ureidoglycolate Dehydrogenase	ureidoglycolate dehydrogenase activity 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	allantoin metabolic process catabolic process metabolic process cellular process allantoin assimilation pathway allantoin catabolic process nucleobase-containing compound metabolic process purine nucleobase metabolic process nucleobase-containing small molecule metabolic process nucleobase metabolic process small molecule metabolic process primary metabolic process purine-containing compound metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR017590	Ureidoglycolate dehydrogenase	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR043143	Malate/L-sulfolactate/L-lactate dehydrogenase-like, NADPH binding domain	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR043144	Malate/L-sulfolactate/L-lactate dehydrogenase-like, alpha-helical domain	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR003767	Malate/L-lactate dehydrogenase-like	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036111	Malate/L-sulfolactate/L-lactate dehydrogenase-like superfamily	Homologous Superfamily

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.