3a3v

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[[Image:3a3v.png|left|200px]]
 
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==Crystal structure of reducing-end-xylose releasing exo-oligoxylanase Y198F mutant==
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The line below this paragraph, containing "STRUCTURE_3a3v", creates the "Structure Box" on the page.
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<StructureSection load='3a3v' size='340' side='right'caption='[[3a3v]], [[Resolution|resolution]] 1.39&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'>[[3a3v]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Alkalihalobacillus_halodurans Alkalihalobacillus halodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A3V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A3V 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]] 1.39&#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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
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{{STRUCTURE_3a3v| PDB=3a3v | 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=3a3v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a3v OCA], [https://pdbe.org/3a3v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a3v RCSB], [https://www.ebi.ac.uk/pdbsum/3a3v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a3v ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/REOX_HALH5 REOX_HALH5] Hydrolyzes xylooligosaccharides with a degree of polymerization of greater than or equal to 3, releasing xylose from the reducing end. Only hydrolyzes the beta anomers of xylooligosaccharides, with inversion of anomeric configuration. Hydrolyzes the glucose and xylose-based trisaccharides where xylose is located at the -1 subsite, GXX, XXG and GXG. Does not hydrolyze xylan, chitosan, lichenan, curdlan or carboxymethylcellulose.<ref>PMID:15491996</ref>
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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/a3/3a3v_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=3a3v 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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Glycosynthases are engineered glycoside hydrolases (GHs) that catalyse the synthesis of glycoside from glycosyl-fluoride donors and suitable acceptors. We have determined five crystal structures of the glycosynthase mutants reducing-end xylose-releasing exo-oligoxylanase, an inverting GH, that exhibit various levels of glycosynthetic activities. At the active site of the Y198F mutant, the most efficient glycosynthase, a water molecule is observed at the same position as nucleophilic water (NW) in the parent enzyme, and the loss of the fixation of the direction of the lone pair of water molecules in the mutant drastically decreases hydrolytic activity. Water molecules were also observed at each active site of the general base mutant, but they were shifted 1.0-3.0 A from the NW in the wild type. Their positions exhibited a strong correlation with the strength of glycosynthase activity. Here, we propose that a structural prerequisite for the sufficient glycosynthase reaction is the presence of a water molecule at the NW position, and mutation at the NW holder provides a general strategy for inverting GHs. The idea on the position of a water molecule may also be applicable to the design of efficient glycosynthases from retaining GHs.
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===Crystal structure of reducing-end-xylose releasing exo-oligoxylanase Y198F mutant===
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Structural explanation for the acquisition of glycosynthase activity.,Hidaka M, Fushinobu S, Honda Y, Wakagi T, Shoun H, Kitaoka M J Biochem. 2010 Feb;147(2):237-44. Epub 2009 Oct 9. PMID:19819900<ref>PMID:19819900</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_19819900}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 3a3v" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 19819900 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19819900}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Alkalihalobacillus halodurans]]
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[[3a3v]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_halodurans Bacillus halodurans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A3V OCA].
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[[Category: Large Structures]]
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[[Category: Fushinobu S]]
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==Reference==
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[[Category: Hidaka M]]
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<ref group="xtra">PMID:19819900</ref><ref group="xtra">PMID:18263897</ref><ref group="xtra">PMID:16301312</ref><ref group="xtra">PMID:15718242</ref><ref group="xtra">PMID:16511021</ref><ref group="xtra">PMID:15491996</ref><references group="xtra"/>
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[[Category: Honda Y]]
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[[Category: Bacillus halodurans]]
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[[Category: Kitaoka M]]
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[[Category: Oligosaccharide reducing-end xylanase]]
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[[Category: Fushinobu, S.]]
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[[Category: Hidaka, M.]]
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[[Category: Honda, Y.]]
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[[Category: Kitaoka, M.]]
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[[Category: Hydrolase]]
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[[Category: Xylan degradation]]
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Current revision

Crystal structure of reducing-end-xylose releasing exo-oligoxylanase Y198F mutant

PDB ID 3a3v

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