8cly | pdb_00008cly

Crystal structure of Rhizobium etli constitutive L-asparaginase ReAIV (tetragonal form R4tP)

spinqualitylabelsall models 8cly, resolution 2.50Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 8cly is a 2 chain structure with sequence from Rhizobium etli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 2.503Å Ligands: CL, EDO, ZN Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function Q2KB35_RHIEC Publication Abstract from PubMed The genome of Rhizobium etli, a nitrogen-fixing bacterial symbiont of legume plants, encodes two L-asparaginases, ReAIV and ReAV, that have no similarity to the well characterized enzymes of class 1 (bacterial type) and class 2 (plant type). It has been hypothesized that ReAIV and ReAV might belong to the same structural class 3 despite their low level of sequence identity. When the crystal structure of the inducible and thermolabile protein ReAV was solved, this hypothesis gained a stronger footing because the key residues of ReAV are also present in the sequence of the constitutive and thermostable ReAIV protein. High-resolution crystal structures of ReAIV now confirm that it is a class 3 L-asparaginase that is structurally similar to ReAV but with important differences. The most striking differences concern the peculiar hydration patterns of the two proteins, the presence of three internal cavities in ReAIV and the behavior of the zinc-binding site. ReAIV has a high pH optimum (9-11) and a substrate affinity of approximately 1.3 mM at pH 9.0. These parameters are not suitable for the direct application of ReAIV as an antileukemic drug, although its thermal stability and lack of glutaminase activity would be of considerable advantage. The five crystal structures of ReAIV presented in this work allow a possible enzymatic scenario to be postulated in which the zinc ion coordinated in the active site is a dispensable element. The catalytic nucleophile seems to be Ser47, which is part of two Ser-Lys tandems in the active site. The structures of ReAIV presented here may provide a basis for future enzyme-engineering experiments to improve the kinetic parameters for medicinal applications. Rhizobium etli has two L-asparaginases with low sequence identity but similar structure and catalytic center.,Loch JI, Worsztynowicz P, Sliwiak J, Grzechowiak M, Imiolczyk B, Pokrywka K, Chwastyk M, Gilski M, Jaskolski M Acta Crystallogr D Struct Biol. 2023 Aug 1;79(Pt 8):775-791. doi: , 10.1107/S2059798323005648. Epub 2023 Jul 26. PMID:37494066 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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