2g79: Difference between revisions

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-[[Image:2g79.gif|left|200px]]<br /><applet load="2g79" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="2g79, resolution 1.690&Aring;" />
-'''Crystal Structure of the R132K:Y134F Mutant of Cellular Retinoic Acid Binding Protein Type II in Complex with All-Trans-Retinal at 1.69 Angstroms Resolution'''<br />
-==Overview==
+==Crystal Structure of the R132K:Y134F Mutant of Cellular Retinoic Acid Binding Protein Type II in Complex with All-Trans-Retinal at 1.69 Angstroms Resolution==
-Rational redesign of the binding pocket of Cellular Retinoic Acid Binding, Protein II (CRABPII) has provided a mutant that can bind retinal as a, protonated Schiff base, mimicking the binding observed in rhodopsin. The, reengineering was accomplished through a series of choreographed, manipulations to ultimately orient the reactive species (the epsilon-amino, group of Lys132 and the carbonyl of retinal) in the proper geometry for, imine formation. The guiding principle was to achieve the appropriate, Burgi-Dunitz trajectory for the reaction to ensue. Through, crystallographic analysis of protein mutants incapable of forming the, requisite Schiff base, a highly ordered water molecule was identified as a, key culprit in orienting retinal in a nonconstructive manner. Removal of, the ordered water, along with placing reinforcing mutations to favor the, desired orientation of retinal, led to a triple mutant CRABPII protein, capable of nanomolar binding of retinal as a protonated Schiff base. The, high-resolution crystal structure of all-trans-retinal bound to the, CRABPII triple mutant (1.2 A resolution) unequivocally illustrates the, imine formed between retinal and the protein.
+<StructureSection load='2g79' size='340' side='right'caption='[[2g79]], [[Resolution|resolution]] 1.69&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2g79]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2G79 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2G79 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.69&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=RET:RETINAL'>RET</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=2g79 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2g79 OCA], [https://pdbe.org/2g79 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2g79 RCSB], [https://www.ebi.ac.uk/pdbsum/2g79 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2g79 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RABP2_HUMAN RABP2_HUMAN] Transports retinoic acid to the nucleus. Regulates the access of retinoic acid to the nuclear retinoic acid receptors.
+== 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/g7/2g79_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=2g79 ConSurf].
+<div style="clear:both"></div>
-==About this Structure==
+==See Also==
-G79 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with <scene name='pdbligand=NA:'>NA</scene>, <scene name='pdbligand=SO4:'>SO4</scene> and <scene name='pdbligand=RET:'>RET</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2G79 OCA].
+*[[CRABP I ( Cellular Retinoic Acid Binding Protein )|CRABP I ( Cellular Retinoic Acid Binding Protein )]]
+*[[Cellular retinoic acid-binding protein 3D structures|Cellular retinoic acid-binding protein 3D structures]]
-==Reference==
+*[[Gustavo Elberto Epalza Sanchez/Sandbox 1|Gustavo Elberto Epalza Sanchez/Sandbox 1]]
-Protein design: reengineering cellular retinoic acid binding protein II into a rhodopsin protein mimic., Vasileiou C, Vaezeslami S, Crist RM, Rabago-Smith M, Geiger JH, Borhan B, J Am Chem Soc. 2007 May 16;129(19):6140-8. Epub 2007 Apr 21. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17447762 17447762]
+*[[Molecular Playground/CRABP I (Cellular Retinoic Acid Binding Protein)|Molecular Playground/CRABP I (Cellular Retinoic Acid Binding Protein)]]
+__TOC__
+</StructureSection>
 [[Category: Homo sapiens]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Geiger, J.H.]]
+[[Category: Geiger JH]]
-[[Category: Vaezeslami, S.]]
+[[Category: Vaezeslami S]]
-[[Category: NA]]
-[[Category: RET]]
-[[Category: SO4]]
-[[Category: beta barrel]]
-[[Category: crabpii]]
-[[Category: crystallography]]
-[[Category: high resolution]]
-[[Category: retinal]]
-[[Category: retinoic acid]]
-[[Category: retinoids]]
-[[Category: x-ray]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 13:42:25 2008''