1gwf | pdb_00001gwf

Compound II structure of Micrococcus Lysodeikticus catalase

spinqualitylabelsall models 1gwf, resolution 1.96Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 1gwf is a 1 chain structure with sequence from "bacteridium_luteum"_schroeter_1872 "bacteridium luteum" schroeter 1872. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: ACT, HEM, O, SO4 NonStd Res: SME Related: 1gwe, 1gwh Gene: katA ("Bacteridium luteum" Schroeter 1872) Activity: Catalase, with EC number 1.11.1.6 Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function [CATA_MICLU] Decomposes hydrogen peroxide into water and oxygen; serves to protect cells from the toxic effects of hydrogen peroxide. Evolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMed The crystal structure of the bacterial catalase from Micrococcus lysodeikticus has been refined using the gene-derived sequence both at 0.88 A resolution using data recorded at 110 K and at 1.5 A resolution with room-temperature data. The atomic resolution structure has been refined with individual anisotropic atomic thermal parameters. This has revealed the geometry of the haem and surrounding protein, including many of the H atoms, with unprecedented accuracy and has characterized functionally important hydrogen-bond interactions in the active site. The positions of the H atoms are consistent with the enzymatic mechanism previously suggested for beef liver catalase. The structure reveals that a 25 A long channel leading to the haem is filled by partially occupied water molecules, suggesting an inherent facile access to the active site. In addition, the structures of the ferryl intermediate of the catalase, the so-called compound II, at 1.96 A resolution and the catalase complex with NADPH at 1.83 A resolution have been determined. Comparison of compound II and the resting state of the enzyme shows that the binding of the O atom to the iron (bond length 1.87 A) is associated with increased haem bending and is accompanied by a distal movement of the iron and the side chain of the proximal tyrosine. Finally, the structure of the NADPH complex shows that the cofactor is bound to the molecule in an equivalent position to that found in beef liver catalase, but that only the adenine part of NADPH is visible in the present structure. The structures of Micrococcus lysodeikticus catalase, its ferryl intermediate (compound II) and NADPH complex.,Murshudov GN, Grebenko AI, Brannigan JA, Antson AA, Barynin VV, Dodson GG, Dauter Z, Wilson KS, Melik-Adamyan WR Acta Crystallogr D Biol Crystallogr. 2002 Dec;58(Pt 12):1972-82. Epub 2002, Nov 23. PMID:12454454 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See Also Catalase

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