2ze4: Difference between revisions

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-[[Image:2ze4.png|left|200px]]
-<!--
+==Crystal structure of phospholipase D from streptomyces antibioticus==
-The line below this paragraph, containing "STRUCTURE_2ze4", creates the "Structure Box" on the page.
+<StructureSection load='2ze4' size='340' side='right'caption='[[2ze4]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[2ze4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptomyces_antibioticus Streptomyces antibioticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZE4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ZE4 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#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></td></tr>
-{{STRUCTURE_2ze4|  PDB=2ze4  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2ze4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ze4 OCA], [https://pdbe.org/2ze4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ze4 RCSB], [https://www.ebi.ac.uk/pdbsum/2ze4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ze4 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/PLD_STRAT PLD_STRAT]
+== 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/ze/2ze4_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2ze4 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Phospholipase D (E.C. 3.1.4.4) from Streptomyces antibioticus has been crystallized in six crystal forms using the hanging-drop vapour-diffusion method. The type III and V crystals belong to monoclinic and hexagonal systems, respectively. All of the other crystal forms, types I, II, IV and VI, belong to orthorhombic space group P212121. Of these four types, the type VI crystals are suitable for X-ray structure determination. Crystal data for type VI crystals are: a = 50.1, b = 98.7, c = 107.6 A, V = 532100 A3, Z = 4 and Vm = 2.47 A3 Da-1. Type VI crystals diffract to at least 2.3 A resolution. A total of 11295 independent reflections to 3 A resolution have been collected from a type VI crystal using a conventional X-ray source, and its structural analysis is currently being conducted using isomorphous replacement methods.
-===Crystal structure of phospholipase D from streptomyces antibioticus===
+Crystallization and preliminary X-ray diffraction studies of phospholipase D from Streptomyces antibioticus.,Suzuki A, Kakuno K, Iwasaki Y, Yamane T, Yamane T Acta Crystallogr D Biol Crystallogr. 1999 Jan;55(Pt 1):317-9. Epub 1999, Jan 1. PMID:010089437<ref>PMID:010089437</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2ze4" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-[[2ze4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptomyces_antibioticus Streptomyces antibioticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ZE4 OCA].
+*[[Phospholipase D 3D structures|Phospholipase D 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:10089437</ref><ref group="xtra">PMID:18338352</ref><references group="xtra"/>
+__TOC__
-[[Category: Phospholipase D]]
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Streptomyces antibioticus]]
-[[Category: Iwasaki, Y.]]
+[[Category: Iwasaki Y]]
-[[Category: Kakuno, K.]]
+[[Category: Kakuno K]]
-[[Category: Saito, R.]]
+[[Category: Saito R]]
-[[Category: Suzuki, A.]]
+[[Category: Suzuki A]]
-[[Category: Yamane, T.]]
+[[Category: Yamane T]]
-[[Category: Alpha-beta-beta-alpha-sandwich]]
-[[Category: Hydrolase]]
-[[Category: Lipid degradation]]
-[[Category: Secreted]]