2x76

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{{Seed}}
 
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[[Image:2x76.png|left|200px]]
 
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==The crystal structure of PhaZ7 at atomic (1.2 Angstrom) resolution reveals details of the active site and suggests a substrate binding mode==
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The line below this paragraph, containing "STRUCTURE_2x76", creates the "Structure Box" on the page.
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<StructureSection load='2x76' size='340' side='right'caption='[[2x76]], [[Resolution|resolution]] 1.45&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2x76]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Paucimonas_lemoignei Paucimonas lemoignei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X76 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2X76 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 1.45&#8491;</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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
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{{STRUCTURE_2x76| PDB=2x76 | SCENE= }}
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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=2x76 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x76 OCA], [https://pdbe.org/2x76 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2x76 RCSB], [https://www.ebi.ac.uk/pdbsum/2x76 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2x76 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q939Q9_PAULE Q939Q9_PAULE]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/x7/2x76_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2x76 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Poly-(R)-hydroxyalkanoates (PHAs) are bacterial polyesters that are degraded by a group of enzymes known as PHA depolymerases. Paucimonas lemoignei PhaZ7 depolymerase is the only extracellular depolymerase that has been described as being active towards amorphous PHAs. A previously determined crystal structure of PhaZ7 revealed an alpha/beta-hydrolase fold and a Ser-His-Asp catalytic triad. In order to address questions regarding the catalytic mechanism and substrate binding, the atomic resolution structure of PhaZ7 was determined after cocrystallization with the protease inhibitor PMSF. The reported structure has the highest resolution (1.2 A) of currently known depolymerase structures and shows a sulfur dioxide molecule covalently attached to the active-site residue Ser136. Structural comparison with the free PhaZ7 structure (1.45 A resolution) revealed no major changes in the active site, suggesting a preformed catalytic triad. The oxyanion hole was found to be formed by the amide groups of Met137 and Asn49. Nine well ordered water molecules were located in the active site. Manual docking of a substrate trimer showed that the positions of these water molecules coincide well with the substrate atoms. It is proposed that these water molecules are displaced upon binding of the substrate. Furthermore, conformational changes were identified after comparison with a previously determined PhaZ7 dimer structure in a different space group. The changes were located in surface loops involved in dimer formation, indicating some flexibility of these loops and their possible involvement in polyester binding.
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===THE CRYSTAL STRUCTURE OF PHAZ7 AT ATOMIC (1.2 ANGSTROM) RESOLUTION REVEALS DETAILS OF THE ACTIVE SITE AND SUGGESTS A SUBSTRATE BINDING MODE===
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The structure of PhaZ7 at atomic (1.2 A) resolution reveals details of the active site and suggests a substrate-binding mode.,Wakadkar S, Hermawan S, Jendrossek D, Papageorgiou AC Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Jun 1;66(Pt, 6):648-54. Epub 2010 May 25. PMID:20516591<ref>PMID:20516591</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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The line below this paragraph, {{ABSTRACT_PUBMED_20516591}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2x76" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 20516591 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_20516591}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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2X76 is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Paucimonas_lemoignei Paucimonas lemoignei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X76 OCA].
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==Reference==
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<ref group="xtra">PMID:20516591</ref><references group="xtra"/>
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[[Category: Paucimonas lemoignei]]
[[Category: Paucimonas lemoignei]]
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[[Category: Hermawan, S.]]
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[[Category: Hermawan S]]
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[[Category: Jendrossek, D.]]
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[[Category: Jendrossek D]]
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[[Category: Papageorgiou, A C.]]
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[[Category: Papageorgiou AC]]
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[[Category: Wakadkar, S.]]
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[[Category: Wakadkar S]]
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[[Category: Biodegradation]]
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[[Category: Biopolymer]]
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[[Category: Catalytic triad]]
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[[Category: Hydrolase]]
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[[Category: Oxyanion hole]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 16 07:54:07 2010''
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Current revision

The crystal structure of PhaZ7 at atomic (1.2 Angstrom) resolution reveals details of the active site and suggests a substrate binding mode

PDB ID 2x76

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