6JD1 | pdb_00006jd1

Cryo-EM Structure of Sulfolobus solfataricus ketol-acid reductoisomerase (Sso-KARI) in complex with Mg2+, NADH, and CPD at pH7.5


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ESCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
ASCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
BSCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
CSCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
DSCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
FSCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
GSCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
HSCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
ISCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
JSCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
KSCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)
LSCOP2B Superfamily6-phosphogluconate dehydrogenase-like 8100428 3000048 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
EIlvCe6jd1E1 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
EIlvNe6jd1E2 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
AIlvCe6jd1A1 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
AIlvNe6jd1A2 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
BIlvCe6jd1B2 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
BIlvNe6jd1B1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
CIlvCe6jd1C2 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
CIlvNe6jd1C1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
DIlvCe6jd1D2 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
DIlvNe6jd1D1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
FIlvCe6jd1F2 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
FIlvNe6jd1F1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
GIlvCe6jd1G2 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
GIlvNe6jd1G1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
HIlvCe6jd1H1 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
HIlvNe6jd1H2 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
IIlvCe6jd1I1 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
IIlvNe6jd1I2 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
JIlvCe6jd1J1 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
JIlvNe6jd1J2 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
KIlvCe6jd1K2 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
KIlvNe6jd1K1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)
LIlvCe6jd1L2 A: alpha arraysX: 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-likeF: IlvCECOD (1.6)
LIlvNe6jd1L1 A: a/b three-layered sandwichesX: Rossmann-likeH: Rossmann-relatedT: NAD(P)-binding Rossmann-fold domainsF: IlvNECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B, C, D, E
PF07991Acetohydroxy acid isomeroreductase, NADPH-binding domain (KARI_N)Acetohydroxy acid isomeroreductase, NADPH-binding domain- Family
A, B, C, D, E
PF01450Ketol-acid reductoisomerase, C-terminal domain (KARI_C)Ketol-acid reductoisomerase, C-terminal domainKetol-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

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B, C, D, E
Putative ketol-acid reductoisomerase 2 -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B, C, D, E
IPR013023Ketol-acid reductoisomeraseFamily
A, B, C, D, E
IPR036291NAD(P)-binding domain superfamilyHomologous Superfamily
A, B, C, D, E
IPR000506Ketol-acid reductoisomerase, C-terminalDomain
A, B, C, D, E
IPR013116Ketol-acid reductoisomerase, N-terminalDomain
A, B, C, D, E
IPR0089276-phosphogluconate dehydrogenase-like, C-terminal domain superfamilyHomologous Superfamily