6a8a | pdb_00006a8a

Ribokinase from Leishmania donovani with ATP

spinqualitylabelsall models 6a8a, resolution 1.80Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 6a8a is a 2 chain structure with sequence from Leishmania donovani BPK282A1. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 1.8Å Ligands: ATP, CL, GOL, NA Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function A0A3S7X0F5_LEIDO Catalyzes the phosphorylation of ribose at O-5 in a reaction requiring ATP and magnesium. The resulting D-ribose-5-phosphate can then be used either for sythesis of nucleotides, histidine, and tryptophan, or as a component of the pentose phosphate pathway.[HAMAP-Rule:MF_03215] Publication Abstract from PubMed Ribokinase (RK) is an ATP dependent sugar kinase that enables the entry of ribose in the metabolism. Leishmania accumulates ribose into the cytosol through hydrolysis of nucleosides and by transport from the extracellular environment. Activation by RK is critical to mobilize the ribose into the metabolism of Leishmania. To understand the catalytic role, the crystal structure of RK (LdRK) from L. donovani was determined in the apo and complex forms with several nucleotides (ATP, AMPPCP and ADP) in the presence of Na(+) ion. The dual insertion of five amino acid stretches makes LdRK structurally unique from other reported structures of RKs. The structure of LdRK-ATP provided the basis for positioning of gamma-phosphate of ATP by conserved -GAGD- motif. Liganded and unliganded structures of LdRK exists in similar conformation, which suggests binding of nucleotides does not make any significant conformational changes in nucleotide-bound structures. Substitution of a conserved asparagine with phenylalanine in ribose binding pocket differentiates the LdRK from other RKs. Glycerol molecule bound in the substrate binding pocket mimics the enzyme-substrate interactions but in turn, hampers the binding of ribose to LdRK. Comparative structural analysis revealed the flexibility of gamma-phosphate, which adopts multiple conformations in the absence of divalent metal ion and ribose. Similar to other RKs, LdRK is also dependent on monovalent as well as divalent cations for its catalytic activity. Unraveling structural insights of ribokinase from Leishmania donovani.,Gatreddi S, Pillalamarri V, Vasudevan D, Addlagatta A, Qureshi IA Int J Biol Macromol. 2019 Sep 1;136:253-265. doi: 10.1016/j.ijbiomac.2019.06.001. , Epub 2019 Jun 3. PMID:31170491 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See Also Ribokinase 3D structures

Proteopedia Page Contributors and Editors (what is this?)

OCA