6qrt | pdb_00006qrt

X-ray radiation dose series on xylose isomerase - 1.38 MGy

spinqualitylabelsall models 6qrt, resolution 1.17Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 6qrt is a 1 chain structure with sequence from Streptomyces rubiginosus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 1.17Å Ligands: EDO, IPA, MG, MN, NA Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function XYLA_STRRU Involved in D-xylose catabolism. Publication Abstract from PubMed Xylose isomerase (XI) is an industrially important metalloprotein studied for decades. Its reaction mechanism has been postulated to involve movement of the catalytic metal cofactor to several different conformations. Here, a dose-dependent approach was used to investigate the radiation damage effects on XI and their potential influence on the reaction mechanism interpreted from the X-ray derived structures. Radiation damage is still one of the major challenges for X-ray diffraction experiments and causes both global and site-specific damage. In this study, consecutive high-resolution data sets from a single XI crystal from the same wedge were collected at 100 K and the progression of radiation damage was tracked over increasing dose (0.13-3.88 MGy). The catalytic metal and its surrounding amino acid environment experience a build-up of free radicals, and the results show radiation-damage-induced structural perturbations ranging from an absolute metal positional shift to specific residue motions in the active site. The apparent metal movement is an artefact of global damage and the resulting unit-cell expansion, but residue motion appears to be driven by the dose. Understanding and identifying radiation-induced damage is an important factor in accurately interpreting the biological conclusions being drawn. Structural knowledge or X-ray damage? A case study on xylose isomerase illustrating both.,Taberman H, Bury CS, van der Woerd MJ, Snell EH, Garman EF J Synchrotron Radiat. 2019 Jul 1;26(Pt 4):931-944. doi:, 10.1107/S1600577519005599. Epub 2019 Jun 24. PMID:31274415 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See Also D-xylose isomerase 3D structures

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