Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2 FamilyThiamin biosynthesis kinases 8025056 4000762 SCOP2 (2022-06-29)
ASCOP2 SuperfamilyRibokinase-like 8037435 3001268 SCOP2 (2022-06-29)
BSCOP2B SuperfamilyRibokinase-like 8037435 3001268 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
APfkBe1jxhA1 A: a/b three-layered sandwichesX: Rossmann-likeH: Ribokinase-like (From Topology)T: Ribokinase-likeF: PfkBECOD (1.6)
BPfkBe1jxhB1 A: a/b three-layered sandwichesX: Rossmann-likeH: Ribokinase-like (From Topology)T: Ribokinase-likeF: PfkBECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A3.40.1190.20 Alpha Beta 3-Layer(aba) Sandwich UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase RibokinaseCATH (4.3.0)
B3.40.1190.20 Alpha Beta 3-Layer(aba) Sandwich UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase RibokinaseCATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B
PF08543Phosphomethylpyrimidine kinase (Phos_pyr_kin)Phosphomethylpyrimidine kinase- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A, B
PHOSPHOMETHYLPYRIMIDINE KINASE

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

ChainsEnzyme NameDescriptionCatalytic Residues
hydroxymethylpyrimidine kinase  M-CSA #670

HMPP kinase is a key enzyme in the biosynthetic pathway for the formation of thiamine. The bacterial form of the enzyme described here is a member of the ribokinase/sugar kinase family, meaning that it displays significant sequence and structural homology with a large number of kinases with different substrates such as Adenosine kinase. It is unusual however because it is able to catalyse two consecutive steps in the synthesis of thiamine; phosphorylation of 4-amino-5-hydroxymethyl-5-methyl pyrimidine (HM) to give HMP followed by phosphorylation of HMP to give HMPP. This makes studying the enzyme interesting for understanding the specificity of the active site.

Defined by 6 residues: LYS:A-198 [auth A-176]THR:A-230 [auth A-208]GLY:A-232 [auth A-210]THR:A-233 [auth A-211]GLY:A-234 [auth A-212]CYS:A-235 [auth A-213]
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