2atm: Difference between revisions

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-[[Image:2atm.png|left|200px]]
-{{STRUCTURE_2atm|  PDB=2atm  |  SCENE=  }}
+==Crystal structure of the recombinant allergen Ves v 2==
+<StructureSection load='2atm' size='340' side='right'caption='[[2atm]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2atm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vespula_vulgaris Vespula vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ATM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ATM FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=SME:METHIONINE+SULFOXIDE'>SME</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=2atm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2atm OCA], [https://pdbe.org/2atm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2atm RCSB], [https://www.ebi.ac.uk/pdbsum/2atm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2atm ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/HUGAA_VESVU HUGAA_VESVU] Hydrolyzes high molecular weight hyaluronic acid to produce small oligosaccharides.
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/at/2atm_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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=2atm ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Wasp venom from Vespula vulgaris contains three major allergens: Ves v 1, Ves v 2 and Ves v 5. Here, the cloning, expression, biochemical characterization and crystal structure determination of the hyaluronidase Ves v 2 from family 56 of the glycoside hydrolases are reported. The allergen was expressed in Escherichia coli as an insoluble protein and refolded and purified to obtain full enzymatic activity. Three N-glycosylation sites at Asn79, Asn99 and Asn127 were identified in Ves v 2 from a natural source by enzymatic digestions combined with MALDI-TOF mass spectrometry. The crystal structure of recombinant Ves v 2 was determined at 2.0 A resolution and reveals a central (beta/alpha)(7) core that is further stabilized by two disulfide bonds (Cys19-Cys308 and Cys185-Cys197). Based on sequence alignments and structural comparison with the honeybee allergen Api m 2, it is proposed that a conserved cavity near the active site is involved in binding of the substrate. Surface epitopes and putative glycosylation sites have been compared with those of two other major group 2 allergens from Apis mellifera (honeybee) and Dolichovespula maculata (white-faced hornet). The analysis suggests that the harboured allergic IgE-mediated cross-reactivity between Ves v 2 and the allergen from D. maculata is much higher than that between Ves v 2 and the allergen from A. mellifera.
-===Crystal structure of the recombinant allergen Ves v 2===
+Structure of recombinant Ves v 2 at 2.0 Angstrom resolution: structural analysis of an allergenic hyaluronidase from wasp venom.,Skov LK, Seppala U, Coen JJ, Crickmore N, King TP, Monsalve R, Kastrup JS, Spangfort MD, Gajhede M Acta Crystallogr D Biol Crystallogr. 2006 Jun;62(Pt 6):595-604. Epub 2006, May 12. PMID:16699186<ref>PMID:16699186</ref>
-{{ABSTRACT_PUBMED_16699186}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-==About this Structure==
+<div class="pdbe-citations 2atm" style="background-color:#fffaf0;"></div>
-[[2atm]] is a 1 chain structure of [[Hyaluronidase]] with sequence from [http://en.wikipedia.org/wiki/Vespula_vulgaris Vespula vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ATM OCA].
 ==See Also==
-*[[Hyaluronidase|Hyaluronidase]]
+*[[Hyaluronidase 3D structures|Hyaluronidase 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:016699186</ref><references group="xtra"/>
+__TOC__
-[[Category: Hyaluronoglucosaminidase]]
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Vespula vulgaris]]
-[[Category: Coen, J J.F.]]
+[[Category: Coen JJF]]
-[[Category: Crickmore, N.]]
+[[Category: Crickmore N]]
-[[Category: Gajhede, M.]]
+[[Category: Gajhede M]]
-[[Category: Kastrup, J S.]]
+[[Category: Kastrup JS]]
-[[Category: King, T P.]]
+[[Category: King TP]]
-[[Category: Monsalve, R.]]
+[[Category: Monsalve R]]
-[[Category: Seppala, U.]]
+[[Category: Seppala U]]
-[[Category: Skov, L K.]]
+[[Category: Skov LK]]
-[[Category: Spangfort, M D.]]
+[[Category: Spangfort MD]]
-[[Category: Beta-alpha-barrel]]
-[[Category: Hydrolase]]