4HFQ | pdb_00004hfq

Crystal structure of UDP-X diphosphatase

External Resource: Annotation


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
ANUDIXe4hfqA2 A: a/b three-layered sandwichesX: beta-GraspH: NudixT: NudixF: NUDIXECOD (v294.1)
ANudix_Ne4hfqA1 A: a/b three-layered sandwichesX: Cystatin-likeH: Nudix hydrolase N-terminal dimerization domainT: Nudix hydrolase N-terminal dimerization domainF: Nudix_NECOD (v294.1)
BFormyl_trans_Ne4hfqB2 A: a/b three-layered sandwichesX: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunitH: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunitT: Fe-S cluster-binding domain in nickel-iron hydrogenase small subunitF: Formyl_trans_NECOD (v294.1)
BNudix_Ne4hfqB1 A: a/b three-layered sandwichesX: Cystatin-likeH: Nudix hydrolase N-terminal dimerization domainT: Nudix hydrolase N-terminal dimerization domainF: Nudix_NECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A3.90.79.10 Alpha Beta Alpha-Beta Complex Nucleoside Triphosphate Pyrophosphohydrolase Nucleoside Triphosphate PyrophosphohydrolaseCATH (4.3.0)
B3.90.79.10 Alpha Beta Alpha-Beta Complex Nucleoside Triphosphate Pyrophosphohydrolase Nucleoside Triphosphate PyrophosphohydrolaseCATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
A, B
PF00293NUDIX domain (NUDIX)NUDIX domainDomain
A, B
PF12535UDP-X-like, N-terminal oligomerisation domain (Nudix_N)UDP-X-like, N-terminal oligomerisation domainThis entry represents an alpha-helical oligomerisation domain which is found at the N-terminal end of a number of phosphatases such as UDP-X diphosphatase from Streptococcus pneumoniae PDB:4HFQ and CDP-Choline Pyrophosphatase from Bacillus cereus PDB ...This entry represents an alpha-helical oligomerisation domain which is found at the N-terminal end of a number of phosphatases such as UDP-X diphosphatase from Streptococcus pneumoniae PDB:4HFQ and CDP-Choline Pyrophosphatase from Bacillus cereus PDB:3Q1P, and related bacterial proteins. This domain precedes the Nudix domain Pfam:PF00293 and this arrangement is typical for this group of phosphatases. UDP-X diphosphatase catalyses the last step of the Mur pathway of peptidoglycan biosynthesis and can hydrolyse the Mur pathway substrates UDP-N-acetylmuramic acid and UDP-N-acetylmuramoyl-L-alanine. In addition to its Nudix catalytic activity, the enzyme has a 3'-5' RNA exonuclease activity [2]. CDP-Choline Pyrophosphatase catalyses the hydrolysis of CDP-choline to produce CMP and phosphocholine and in addition, the enzyme has a 3'-5' RNA exonuclease activity [3].
Domain

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A, B
IPR000086NUDIX hydrolase domainDomain
A, B
IPR059176UDP-X diphosphatase-like, N-terminal oligomerisation domainDomain
A, B
IPR015797NUDIX hydrolase-like domain superfamilyHomologous Superfamily