2yxx: Difference between revisions

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

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-[[Image:2yxx.gif|left|200px]]<br /><applet load="2yxx" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="2yxx, resolution 1.70&Aring;" />
-'''Crystal structure analysis of Diaminopimelate decarboxylate (lysA)'''<br />
-==About this Structure==
+==Crystal structure analysis of Diaminopimelate decarboxylate (lysA)==
-YXX is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima] with <scene name='pdbligand=PLP:'>PLP</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Diaminopimelate_decarboxylase Diaminopimelate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.20 4.1.1.20] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YXX OCA].
+<StructureSection load='2yxx' size='340' side='right'caption='[[2yxx]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2yxx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Thema Thema]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YXX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2YXX FirstGlance]. <br>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene></td></tr>
+<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
+<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Diaminopimelate_decarboxylase Diaminopimelate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.20 4.1.1.20] </span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2yxx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2yxx OCA], [http://pdbe.org/2yxx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2yxx RCSB], [http://www.ebi.ac.uk/pdbsum/2yxx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2yxx ProSAT], [http://www.topsan.org/Proteins/RSGI/2yxx TOPSAN]</span></td></tr>
+</table>
+== Function ==
+[[http://www.uniprot.org/uniprot/DCDA_THEMA DCDA_THEMA]] Specifically catalyzes the decarboxylation of meso-diaminopimelate (meso-DAP) to L-lysine (By similarity).[HAMAP-Rule:MF_02120]
+== 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/yx/2yxx_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=2yxx ConSurf].
+<div style="clear:both"></div>
+__TOC__
+</StructureSection>
 [[Category: Diaminopimelate decarboxylase]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Thermotoga maritima]]
+[[Category: Thema]]
-[[Category: Bessho, Y.]]
+[[Category: Bessho, Y]]
-[[Category: Nakamura, Y.]]
+[[Category: Nakamura, Y]]
-[[Category: Padmanabhan, B.]]
+[[Category: Padmanabhan, B]]
-[[Category: RSGI, RIKEN.Structural.Genomics/Proteomics.Initiative.]]
+[[Category: Structural genomic]]
-[[Category: Yokoyama, S.]]
+[[Category: Yokoyama, S]]
-[[Category: PLP]]
+[[Category: Lyase]]
-[[Category: lyase]]
+[[Category: National project on protein structural and functional analyse]]
-[[Category: national project on protein structural and functional analyses]]
+[[Category: Nppsfa]]
-[[Category: nppsfa]]
+[[Category: Rsgi]]
-[[Category: riken structural genomics/proteomics initiative]]
+[[Category: Tim beta/alpha barrel fold]]
-[[Category: rsgi]]
+[[Category: Tm1517]]
-[[Category: structural genomics]]
-[[Category: tim beta/alpha barrel fold]]
-[[Category: tm1517]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 12:39:30 2008''