6e2v | pdb_00006e2v

MDDEF in complex with MVAPP, ADPBeF3 and magnesium

spinqualitylabelsall models 6e2v, resolution 2.10Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 6e2v is a 1 chain structure with sequence from Enterococcus faecalis. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 2.1Å Ligands: ADP, BEF, DP6, MG Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function Q9FD68_ENTFL Publication Abstract from PubMed Mevalonate diphosphate decarboxylases (MDDs) catalyze the ATP-dependent-Mg(2+)-decarboxylation of mevalonate-5-diphosphate (MVAPP) to produce isopentenyl diphosphate (IPP), which is essential in both eukaryotes and prokaryotes for polyisoprenoid synthesis. The substrates, MVAPP and ATP, have been shown to bind sequentially to MDD. Here we report crystals in which the enzyme remains active, allowing the visualization of conformational changes in Enterococcus faecalis MDD that describe sequential steps in an induced fit enzymatic reaction. Initial binding of MVAPP modulates the ATP binding pocket with a large loop movement. Upon ATP binding, a phosphate binding loop bends over the active site to recognize ATP and bring the molecules to their catalytically favored configuration. Positioned substrates then can chelate two Mg(2+) ions for the two steps of the reaction. Closure of the active site entrance brings a conserved lysine to trigger dissociative phosphoryl transfer of gamma-phosphate from ATP to MVAPP, followed by the production of IPP. Visualizing the enzyme mechanism of mevalonate diphosphate decarboxylase.,Chen CL, Paul LN, Mermoud JC, Steussy CN, Stauffacher CV Nat Commun. 2020 Aug 7;11(1):3969. doi: 10.1038/s41467-020-17733-0. PMID:32769976 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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