2b99: Difference between revisions

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OCA

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-[[Image:2b99.gif|left|200px]]<br /><applet load="2b99" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="2b99, resolution 2.22&Aring;" />
-'''Crystal Structure of an archaeal pentameric riboflavin synthase Complex with a Substrate analog inhibitor'''<br />
-==Overview==
+==Crystal Structure of an archaeal pentameric riboflavin synthase Complex with a Substrate analog inhibitor==
-Whereas eubacterial and eukaryotic riboflavin synthases form homotrimers, archaeal riboflavin synthases from Methanocaldococcus jannaschii and, Methanothermobacter thermoautrophicus are homopentamers with sequence, similarity to the 6,7-dimethyl-8-ribityllumazine synthase catalyzing the, penultimate step in riboflavin biosynthesis. Recently it could be shown, that the complex dismutation reaction catalyzed by the pentameric M., jannaschii riboflavin synthase generates riboflavin with the same, regiochemistry as observed for trimeric riboflavin synthases. Here we, present crystal structures of the pentameric riboflavin synthase from M., jannaschii and its complex with the substrate analog inhibitor, 6,7-dioxo-8-ribityllumazine. The complex structure shows five active sites, located between adjacent monomers of the pentamer. Each active site can, accommodate two substrate analog molecules in anti-parallel orientation., The topology of the two bound ligands at the active site is well in line, with the known stereochemistry of a pentacyclic adduct of, 6,7-dimethyl-8-ribityllumazine that has been shown to serve as a, kinetically competent intermediate. The pentacyclic intermediates of, trimeric and pentameric riboflavin synthases are diastereomers.
+<StructureSection load='2b99' size='340' side='right'caption='[[2b99]], [[Resolution|resolution]] 2.22&Aring;' scene=''>
+== Structural highlights ==
-==About this Structure==
+<table><tr><td colspan='2'>[[2b99]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B99 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B99 FirstGlance]. <br>
-B99 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii] with RDL as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Riboflavin_synthase Riboflavin synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.9 2.5.1.9] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2B99 OCA].
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.22&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=RDL:6,7-DIOXO-5H-8-RIBITYLAMINOLUMAZINE'>RDL</scene></td></tr>
-==Reference==
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2b99 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b99 OCA], [https://pdbe.org/2b99 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b99 RCSB], [https://www.ebi.ac.uk/pdbsum/2b99 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b99 ProSAT]</span></td></tr>
-Crystal structure of an archaeal pentameric riboflavin synthase in complex with a substrate analog inhibitor: stereochemical implications., Ramsperger A, Augustin M, Schott AK, Gerhardt S, Krojer T, Eisenreich W, Illarionov B, Cushman M, Bacher A, Huber R, Fischer M, J Biol Chem. 2006 Jan 13;281(2):1224-32. Epub 2005 Nov 4. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16272154 16272154]
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RISC_METJA RISC_METJA]
+== 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/b9/2b99_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=2b99 ConSurf].
+<div style="clear:both"></div>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Methanocaldococcus jannaschii]]
-[[Category: Riboflavin synthase]]
+[[Category: Augustin M]]
-[[Category: Single protein]]
+[[Category: Bacher A]]
-[[Category: Augustin, M.]]
+[[Category: Cushman M]]
-[[Category: Bacher, A.]]
+[[Category: Eisenreich W]]
-[[Category: Cushman, M.]]
+[[Category: Fischer M]]
-[[Category: Eisenreich, W.]]
+[[Category: Gerhardt S]]
-[[Category: Fischer, M.]]
+[[Category: Huber R]]
-[[Category: Gerhardt, S.]]
+[[Category: Illarionov B]]
-[[Category: Huber, R.]]
+[[Category: Krojer T]]
-[[Category: Illarionov, B.]]
+[[Category: Ramsperger A]]
-[[Category: Krojer, T.]]
+[[Category: Schott AK]]
-[[Category: Ramsperger, A.]]
-[[Category: Schott, A.K.]]
-[[Category: RDL]]
-[[Category: lumazine riboflavin]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 08:39:04 2007''