1YVE | pdb_00001yve

ACETOHYDROXY ACID ISOMEROREDUCTASE COMPLEXED WITH NADPH, MAGNESIUM AND INHIBITOR IPOHA (N-HYDROXY-N-ISOPROPYLOXAMATE)

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
Structure Motif: Primary M-CSA Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth I]	d1yvei1	All alpha proteins	6-phosphogluconate dehydrogenase C-terminal domain-like	6-phosphogluconate dehydrogenase C-terminal domain-like	Acetohydroxy acid isomeroreductase (ketol-acid reductoisomerase, KARI)	Class II ketol-acid reductoisomerase	spinach (Spinacia oleracea ) [TaxId: 3562 ],	SCOPe (2.08)
A [auth I]	d1yvei2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	6-phosphogluconate dehydrogenase-like, N-terminal domain	Class II ketol-acid reductoisomerase (KARI)	spinach (Spinacia oleracea ) [TaxId: 3562 ],	SCOPe (2.08)
B [auth J]	d1yvej1	All alpha proteins	6-phosphogluconate dehydrogenase C-terminal domain-like	6-phosphogluconate dehydrogenase C-terminal domain-like	Acetohydroxy acid isomeroreductase (ketol-acid reductoisomerase, KARI)	Class II ketol-acid reductoisomerase	spinach (Spinacia oleracea ) [TaxId: 3562 ],	SCOPe (2.08)
B [auth J]	d1yvej2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	6-phosphogluconate dehydrogenase-like, N-terminal domain	Class II ketol-acid reductoisomerase (KARI)	spinach (Spinacia oleracea ) [TaxId: 3562 ],	SCOPe (2.08)
C [auth K]	d1yvek1	All alpha proteins	6-phosphogluconate dehydrogenase C-terminal domain-like	6-phosphogluconate dehydrogenase C-terminal domain-like	Acetohydroxy acid isomeroreductase (ketol-acid reductoisomerase, KARI)	Class II ketol-acid reductoisomerase	spinach (Spinacia oleracea ) [TaxId: 3562 ],	SCOPe (2.08)
C [auth K]	d1yvek2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	6-phosphogluconate dehydrogenase-like, N-terminal domain	Class II ketol-acid reductoisomerase (KARI)	spinach (Spinacia oleracea ) [TaxId: 3562 ],	SCOPe (2.08)
D [auth L]	d1yvel1	All alpha proteins	6-phosphogluconate dehydrogenase C-terminal domain-like	6-phosphogluconate dehydrogenase C-terminal domain-like	Acetohydroxy acid isomeroreductase (ketol-acid reductoisomerase, KARI)	Class II ketol-acid reductoisomerase	spinach (Spinacia oleracea ) [TaxId: 3562 ],	SCOPe (2.08)
D [auth L]	d1yvel2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	6-phosphogluconate dehydrogenase-like, N-terminal domain	Class II ketol-acid reductoisomerase (KARI)	spinach (Spinacia oleracea ) [TaxId: 3562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth I]	SCOP2B Superfamily	6-phosphogluconate dehydrogenase-like	8017592	3000048	SCOP2B (2022-06-29)
B [auth J]	SCOP2B Superfamily	6-phosphogluconate dehydrogenase-like	8017592	3000048	SCOP2B (2022-06-29)
C [auth K]	SCOP2B Superfamily	6-phosphogluconate dehydrogenase-like	8017592	3000048	SCOP2B (2022-06-29)
D [auth L]	SCOP2B Superfamily	6-phosphogluconate dehydrogenase-like	8017592	3000048	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 [auth I]	IlvC	e1yveI1	A: alpha arrays	X: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	H: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	T: 6-phosphogluconate dehydrogenase C-terminal domain-like	F: IlvC	ECOD (1.6)
A [auth I]	IlvN	e1yveI2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: IlvN	ECOD (1.6)
B [auth J]	IlvC	e1yveJ1	A: alpha arrays	X: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	H: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	T: 6-phosphogluconate dehydrogenase C-terminal domain-like	F: IlvC	ECOD (1.6)
B [auth J]	IlvN	e1yveJ2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: IlvN	ECOD (1.6)
C [auth K]	IlvC	e1yveK1	A: alpha arrays	X: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	H: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	T: 6-phosphogluconate dehydrogenase C-terminal domain-like	F: IlvC	ECOD (1.6)
C [auth K]	IlvN	e1yveK2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: IlvN	ECOD (1.6)
D [auth L]	IlvC	e1yveL1	A: alpha arrays	X: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	H: 6-phosphogluconate dehydrogenase C-terminal domain-like (From Topology)	T: 6-phosphogluconate dehydrogenase C-terminal domain-like	F: IlvC	ECOD (1.6)
D [auth L]	IlvN	e1yveL2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: IlvN	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth I]	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
A [auth I]	1.10.1040.10	Mainly Alpha	Orthogonal Bundle	N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase	domain 2	CATH (4.3.0)
B [auth J]	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
B [auth J]	1.10.1040.10	Mainly Alpha	Orthogonal Bundle	N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase	domain 2	CATH (4.3.0)
C [auth K]	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
C [auth K]	1.10.1040.10	Mainly Alpha	Orthogonal Bundle	N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase	domain 2	CATH (4.3.0)
D [auth L]	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
D [auth L]	1.10.1040.10	Mainly Alpha	Orthogonal Bundle	N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth I], B [auth J], C [auth K], D [auth L]	PF07991	Acetohydroxy acid isomeroreductase, NADPH-binding domain (KARI_N)	Acetohydroxy acid isomeroreductase, NADPH-binding domain	-	Family
A [auth I], B [auth J], C [auth K], D [auth L]	PF01450	Ketol-acid reductoisomerase, C-terminal domain (KARI_C)	Ketol-acid reductoisomerase, C-terminal domain	Ketol-acid reductoisomerase (KARI; EC:1.1.1.86), also known as acetohydroxy acid isomeroreductase (AHIR or AHAIR), catalyses the conversion of acetohydroxy acids into dihydroxy valerates in the second step of the biosynthetic pathway for the essent ...	Ketol-acid reductoisomerase (KARI; EC:1.1.1.86), also known as acetohydroxy acid isomeroreductase (AHIR or AHAIR), catalyses the conversion of acetohydroxy acids into dihydroxy valerates in the second step of the biosynthetic pathway for the essential branched-chain amino acids valine, leucine, and isoleucine [1, 2, 3, 4, 5, 6]. KARI is present only in bacteria, fungi, and plants, but not in animals. KARIs are divided into two classes on the basis of sequence length and oligomerisation state. Class I KARIs are ~340 amino acid residues in length and include all fungal KARIs, whereas class II KARIs are ~490 residues long and include all plant KARIs. Bacterial KARIs can be either class I or class II. KARIs are composed of two types of domains, an N-terminal Rossmann fold domain and one or two C-terminal knotted domains. Two intertwinned knotted domains are required for function, and in the short-chain or class I KARIs, each polypeptide chain has one knotted domain. As a result, dimerization of two monomers forms two complete KARI active sites. In the long-chain or class II KARIs, a duplication of the knotted domain has occurred and, as a result, the protein does not require dimerisation to complete its active site [1, 2, 3, 4, 5, 6]. The alpha-helical KARI C-terminal knotted domain can be described as a six-helix core in which helices coil like cable threads around each other, thus forming a bundle [1, 2, 3, 4, 5].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth I], B [auth J], C [auth K], D [auth L]	ACETOHYDROXY ACID ISOMEROREDUCTASE	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding nucleotide binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding heterocyclic compound binding NADPH binding NADP binding cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding nucleotide binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding heterocyclic compound binding NADPH binding NADP binding identical protein binding protein binding protein homodimerization activity protein dimerization 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 ketol-acid reductoisomerase activity catalytic activity	pyruvate family amino acid metabolic process oxoacid metabolic process pyruvate family amino acid biosynthetic process amino acid metabolic process organic acid metabolic process organic acid biosynthetic process alpha-amino acid metabolic process carboxylic acid biosynthetic process small molecule metabolic process branched-chain amino acid metabolic process small molecule biosynthetic process carboxylic acid metabolic process L-amino acid biosynthetic process primary metabolic process pyruvate family amino acid metabolic process oxoacid metabolic process pyruvate family amino acid biosynthetic process amino acid metabolic process organic acid metabolic process organic acid biosynthetic process alpha-amino acid metabolic process carboxylic acid biosynthetic process small molecule metabolic process branched-chain amino acid metabolic process small molecule biosynthetic process carboxylic acid metabolic process L-amino acid biosynthetic process primary metabolic process L-valine biosynthetic process L-amino acid metabolic process proteinogenic amino acid metabolic process amino acid biosynthetic process biosynthetic process branched-chain amino acid biosynthetic process proteinogenic amino acid biosynthetic process metabolic process cellular process alpha-amino acid biosynthetic process valine metabolic process isoleucine biosynthetic process isoleucine metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle plastid chloroplast

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth I], B [auth J], C [auth K], D [auth L]	IPR013116	Ketol-acid reductoisomerase, N-terminal	Domain
A [auth I], B [auth J], C [auth K], D [auth L]	IPR008927	6-phosphogluconate dehydrogenase-like, C-terminal domain superfamily	Homologous Superfamily
A [auth I], B [auth J], C [auth K], D [auth L]	IPR013023	Ketol-acid reductoisomerase	Family
A [auth I], B [auth J], C [auth K], D [auth L]	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A [auth I], B [auth J], C [auth K], D [auth L]	IPR000506	Ketol-acid reductoisomerase, C-terminal	Domain
A [auth I], B [auth J], C [auth K], D [auth L]	IPR013328	6-phosphogluconate dehydrogenase, domain 2	Homologous Superfamily
A [auth I], B [auth J], C [auth K], D [auth L]	IPR016206	Ketol-acid reductoisomerase, plant	Family

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
C [auth K]	ketol-acid reductoisomerase M-CSA #890	Ketol-acid reductoisomerase (KARI) is a Mg(2+) -dependent enzyme in the branched-chain amino acid biosynthesis pathway. KARI catalyses two steps in the biosynthesis of branched-chain amino acids. The reaction involves an Mg(II) dependent alkyl migration followed by an NADPH-dependent reduction of the 2-keto group.	Defined by 3 residues: LYS:C-181 [auth K-252]ASP:C-244 [auth K-315]GLU:C-248 [auth K-319] \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 1.1.1.86 (PDB Primary Data) Search M-CSA Motif + EC 1.1.1.86

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.