3ijq: Difference between revisions

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OCA

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 ==Structure of dipeptide epimerase from Bacteroides thetaiotaomicron complexed with L-Ala-D-Glu; productive substrate binding.==
-<StructureSection load='3ijq' size='340' side='right' caption='[[3ijq]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+<StructureSection load='3ijq' size='340' side='right'caption='[[3ijq]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3ijq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron Bacteroides thetaiotaomicron]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IJQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IJQ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3ijq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron Bacteroides thetaiotaomicron]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IJQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IJQ FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ALA:ALANINE'>ALA</scene>, <scene name='pdbligand=DGL:D-GLUTAMIC+ACID'>DGL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+</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='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3iji|3iji]], [[3ijl|3ijl]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ALA:ALANINE'>ALA</scene>, <scene name='pdbligand=DGL:D-GLUTAMIC+ACID'>DGL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">BT_1313 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=818 Bacteroides thetaiotaomicron])</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=3ijq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ijq OCA], [https://pdbe.org/3ijq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ijq RCSB], [https://www.ebi.ac.uk/pdbsum/3ijq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ijq ProSAT]</span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ijq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ijq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ijq RCSB], [http://www.ebi.ac.uk/pdbsum/3ijq PDBsum]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/AEEP_BACTN AEEP_BACTN] Catalyzes the epimerization of L-Ala-D-Glu to L-Ala-L-Glu and may play a role in the metabolism of the murein peptide, of which L-Ala-D-Glu is a component. Is also able to catalyze the epimerization of L-Ala-D-Asp, L-Ala-L-Glu, L-Ala-L-Ser, L-Ala-L-Pro, L-Ala-L-L-Val, L-Ala-L-Thr, L-Ala-L-Leu, L-Ala-L-Ile and L-Gly-L-Glu (in vitro).<ref>PMID:22392983</ref>
 == 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/ij/3ijq_consurf.spt"</scriptWhenChecked>
+     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ij/3ijq_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/chain_selection.php?pdb_ID=2ata ConSurf].
+</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=3ijq ConSurf].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 26: / Line 28: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3ijq" style="background-color:#fffaf0;"></div>
 ==See Also==
@@ Line 34: / Line 37: @@
 </StructureSection>
 [[Category: Bacteroides thetaiotaomicron]]
-[[Category: Almo, S C]]
+[[Category: Large Structures]]
-[[Category: Fedorov, A A]]
+[[Category: Almo SC]]
-[[Category: Fedorov, E V]]
+[[Category: Fedorov AA]]
-[[Category: Gerlt, J A]]
+[[Category: Fedorov EV]]
-[[Category: Lukk, T]]
+[[Category: Gerlt JA]]
-[[Category: Dipeptide epimerase]]
+[[Category: Lukk T]]
-[[Category: Enolase superfamily]]
-[[Category: Isomerase]]
-[[Category: L-ala-d-glu]]
-[[Category: Productive binding]]