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3pkx

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Current revision (10:41, 21 February 2024) (edit) (undo)
 
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<StructureSection load='3pkx' size='340' side='right'caption='[[3pkx]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
<StructureSection load='3pkx' size='340' side='right'caption='[[3pkx]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3pkx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"aerobacillus_polymyxa"_(prazmowski_1880)_donker_1926 "aerobacillus polymyxa" (prazmowski 1880) donker 1926]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PKX FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3pkx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Paenibacillus_polymyxa Paenibacillus polymyxa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PKX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PKX FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=TOF:1,6-DIMETHYLPYRIMIDO[5,4-E][1,2,4]TRIAZINE-5,7(1H,6H)-DIONE'>TOF</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3pkv|3pkv]], [[3pkw|3pkw]]</div></td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=TOF:1,6-DIMETHYLPYRIMIDO[5,4-E][1,2,4]TRIAZINE-5,7(1H,6H)-DIONE'>TOF</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">tflA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1406 "Aerobacillus polymyxa" (Prazmowski 1880) Donker 1926])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3pkx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkx OCA], [https://pdbe.org/3pkx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pkx RCSB], [https://www.ebi.ac.uk/pdbsum/3pkx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkx ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3pkx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pkx OCA], [https://pdbe.org/3pkx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pkx RCSB], [https://www.ebi.ac.uk/pdbsum/3pkx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pkx ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/E3SET7_PAEPO E3SET7_PAEPO]
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High resolution crystal structures are reported for apo, holo, and substrate-bound forms of a toxoflavin-degrading metalloenzyme (TflA). In addition, the degradation reaction is shown to be dependent on oxygen, Mn(II), and dithiothreitol &lt;i&gt;in vitro&lt;/i&gt;. Despite its low sequence identity with proteins of known structure, TflA is structurally homologous to proteins of the vicinal oxygen chelate superfamily. Like other metalloenzymes in this superfamily, the TflA fold contains four modules that associate to form a metal binding site; however, the fold displays a rare rearrangement of the structural modules indicative of domain permutation. Moreover, unlike the 2-His-1-carboxylate facial triad commonly utilized by vicinal oxygen chelate dioxygenases and other dioxygen-activating non-heme Fe(II) enzymes, the metal center in TflA consists of a 1-His-2-carboxylate facial triad. The substrate-bound complex shows square-pyramidal geometry in which one position is occupied by O5 of toxoflavin. The open coordination site is predicted to be the dioxygen binding site. TflA appears to stabilize the reduced form of toxoflavin through second-sphere interactions. This anionic species is predicted to be the electron source responsible for reductive activation of oxygen to produce a peroxytoxoflavin intermediate.&lt;i&gt;
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Toxoflavin Lyase Requires a Novel 1-His-2-Carboxylate Facial Triad.,Fenwick MK, Philmus B, Begley TP, Ealick SE Biochemistry. 2010 Dec 17. PMID:21166463<ref>PMID:21166463</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3pkx" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Begley, T P]]
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[[Category: Paenibacillus polymyxa]]
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[[Category: Ealick, S E]]
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[[Category: Begley TP]]
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[[Category: Fenwick, M K]]
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[[Category: Ealick SE]]
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[[Category: Philmus, B]]
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[[Category: Fenwick MK]]
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[[Category: Lyase]]
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[[Category: Philmus B]]
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[[Category: Metalloenzyme]]
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[[Category: Vicinal oxygen chelate superfamily]]
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Current revision

Crystal Structure of Toxoflavin Lyase (TflA) bound to Mn(II) and Toxoflavin

PDB ID 3pkx

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