2e1a: Difference between revisions

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-[[Image:2e1a.jpg|left|200px]]<br /><applet load="2e1a" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="2e1a, resolution 2.5&Aring;" />
-'''crystal structure of FFRP-DM1'''<br />
-==Overview==
+==crystal structure of FFRP-DM1==
-Feast/famine regulatory proteins (FFRPs) comprise the largest group of archaeal transcription factors. Crystal structures of an FFRP, DM1 from Pyrococcus, were determined in complex with isoleucine, which increases the association state of DM1 to form octamers, and with selenomethionine, which decreases it to maintain dimers under some conditions. Asp39 and Thr/Ser at 69-71 were identified as being important for interaction with the ligand main chain. By analyzing residues surrounding the ligand side chain, partner ligands were identified for various FFRPs from Pyrococcus, e.g., lysine facilitates homo-octamerization of FL11, and arginine facilitates hetero-octamerization of FL11 and DM1. Transcription of the fl11 gene and lysine synthesis are regulated by shifting the equilibrium between association states of FL11 and by shifting the equilibrium toward association with DM1, in response to amino acid availability. With FFRPs also appearing in eubacteria, the origin of such regulation can be traced back to the common ancestor of all extant organisms, serving as a prototype of transcription regulations, now highly diverged.
+<StructureSection load='2e1a' size='340' side='right'caption='[[2e1a]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
+== Structural highlights ==
-==About this Structure==
+<table><tr><td colspan='2'>[[2e1a]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii_OT3 Pyrococcus horikoshii OT3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E1A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2E1A FirstGlance]. <br>
-E1A is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii] with <scene name='pdbligand=MSE:'>MSE</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E1A 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]] 2.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=2e1a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e1a OCA], [https://pdbe.org/2e1a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2e1a RCSB], [https://www.ebi.ac.uk/pdbsum/2e1a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2e1a ProSAT]</span></td></tr>
-A structural code for discriminating between transcription signals revealed by the feast/famine regulatory protein DM1 in complex with ligands., Okamura H, Yokoyama K, Koike H, Yamada M, Shimowasa A, Kabasawa M, Kawashima T, Suzuki M, Structure. 2007 Oct;15(10):1325-38. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17937921 17937921]
+</table>
-[[Category: Pyrococcus horikoshii]]
+== Function ==
-[[Category: Single protein]]
+[https://www.uniprot.org/uniprot/O73983_PYRHO O73983_PYRHO]
-[[Category: Koike, H.]]
+== Evolutionary Conservation ==
-[[Category: Suzuki, M.]]
+[[Image:Consurf_key_small.gif|200px|right]]
-[[Category: MSE]]
+Check<jmol>
-[[Category: archaea]]
+  <jmolCheckbox>
-[[Category: transcriptional regulatory protein]]
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/e1/2e1a_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 17:04:47 2008''
+    <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=2e1a ConSurf].
+<div style="clear:both"></div>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Pyrococcus horikoshii OT3]]
+[[Category: Koike H]]
+[[Category: Suzuki M]]