5ksk: Difference between revisions
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<StructureSection load='5ksk' size='340' side='right' caption='[[5ksk]], [[Resolution|resolution]] 1.69Å' scene=''> | <StructureSection load='5ksk' size='340' side='right' caption='[[5ksk]], [[Resolution|resolution]] 1.69Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[5ksk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KSK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KSK FirstGlance]. <br> | <table><tr><td colspan='2'>[[5ksk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Burp1 Burp1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KSK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KSK FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=OXY:OXYGEN+MOLECULE'>OXY</scene></td></tr> | ||
<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TOX:1-HYDROPEROXY-L-TRYPTOPHAN'>TOX</scene></td></tr> | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TOX:1-HYDROPEROXY-L-TRYPTOPHAN'>TOX</scene></td></tr> | ||
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5kq0|5kq0]], [[5kq2|5kq2]], [[5kq3|5kq3]], [[5kq6|5kq6]], [[5kq7|5kq7]], [[5kqh|5kqh]], [[5kqi|5kqi]], [[5kqk|5kqk]], [[5kqn|5kqn]], [[5kqq|5kqq]], [[5ksf|5ksf]], [[5ksg|5ksg]], [[5ksn|5ksn]], [[5kt8|5kt8]], [[5kt9|5kt9]]</td></tr> | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5kq0|5kq0]], [[5kq2|5kq2]], [[5kq3|5kq3]], [[5kq6|5kq6]], [[5kq7|5kq7]], [[5kqh|5kqh]], [[5kqi|5kqi]], [[5kqk|5kqk]], [[5kqn|5kqn]], [[5kqq|5kqq]], [[5ksf|5ksf]], [[5ksg|5ksg]], [[5ksn|5ksn]], [[5kt8|5kt8]], [[5kt9|5kt9]]</td></tr> | ||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">katG, BURPS1710b_3366 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=320372 BURP1])</td></tr> | |||
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Catalase_peroxidase Catalase peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.21 1.11.1.21] </span></td></tr> | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Catalase_peroxidase Catalase peroxidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.11.1.21 1.11.1.21] </span></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ksk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ksk OCA], [http://pdbe.org/5ksk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ksk RCSB], [http://www.ebi.ac.uk/pdbsum/5ksk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ksk ProSAT]</span></td></tr> | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ksk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ksk OCA], [http://pdbe.org/5ksk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ksk RCSB], [http://www.ebi.ac.uk/pdbsum/5ksk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ksk ProSAT]</span></td></tr> | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Burp1]] | |||
[[Category: Catalase peroxidase]] | [[Category: Catalase peroxidase]] | ||
[[Category: Loewen, P C]] | [[Category: Loewen, P C]] | ||
Revision as of 16:03, 6 November 2017
Crystal structure of the catalase-peroxidase from B. pseudomallei treated with acetateCrystal structure of the catalase-peroxidase from B. pseudomallei treated with acetate
Structural highlights
Function[KATG_BURP1] Bifunctional enzyme with both catalase and broad-spectrum peroxidase activity. Publication Abstract from PubMedThe unusual Met-Tyr-Trp adduct composed of cross-linked side chains along with an associated mobile Arg is essential for catalase activity in catalase-peroxidases. In addition, acidic residues in the entrance channel, in particular an Asp and a Glu approximately 7 and approximately 15 A, respectively, from the heme, significantly enhance catalase activity. The mechanism by which these channel carboxylates influence catalase activity is the focus of this work. Seventeen new variants with fewer and additional acidic residues have been constructed and characterized structurally and for enzymatic activity, revealing that their effect on activity is roughly inversely proportional to their distance from the heme and adduct, suggesting that the electrostatic potential of the heme cavity may be affected. A discrete group of protonable residues are contained within a 15 A sphere surrounding the heme iron, and a computational analysis reveals that the pKa of the distal His112, alone, is modulated within the pH range of catalase activity by the remote acidic residues in a pattern consistent with its protonated form having a key role in the catalase reaction cycle. The electrostatic potential also impacts the catalatic reaction through its influence on the charged status of the Met-Tyr-Trp adduct. The Catalase Activity of Catalase-Peroxidases Is Modulated by Changes in the pKa of the Distal Histidine.,Machuqueiro M, Victor B, Switala J, Villanueva J, Rovira C, Fita I, Loewen PC Biochemistry. 2017 Apr 20. doi: 10.1021/acs.biochem.6b01276. PMID:28409923[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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