2ie2: Difference between revisions

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-{{Seed}}
-[[Image:2ie2.png|left|200px]]
-<!--
+==The 1.7 A crystal structure of Dronpa: a photoswitchable green fluorescent protein==
-The line below this paragraph, containing "STRUCTURE_2ie2", creates the "Structure Box" on the page.
+<StructureSection load='2ie2' size='340' side='right'caption='[[2ie2]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[2ie2]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Echinophyllia_sp._SC22 Echinophyllia sp. SC22]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IE2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IE2 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GYC:[(4Z)-2-[(1R)-1-AMINO-2-MERCAPTOETHYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC+ACID'>GYC</scene></td></tr>
-{{STRUCTURE_2ie2|  PDB=2ie2  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2ie2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ie2 OCA], [https://pdbe.org/2ie2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ie2 RCSB], [https://www.ebi.ac.uk/pdbsum/2ie2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ie2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q5TLG6_9CNID Q5TLG6_9CNID]
+== 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/ie/2ie2_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2ie2 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The green fluorescent protein (GFP), its variants, and the closely related GFP-like proteins possess a wide variety of spectral properties that are of widespread interest as biological tools. One desirable spectral property, termed photoswitching, involves the light-induced alteration of the optical properties of certain GFP members. Although the structural basis of both reversible and irreversible photoswitching events have begun to be unraveled, the mechanisms resulting in reversible photoswitching are less clear. A novel GFP-like protein, Dronpa, was identified to have remarkable light-induced photoswitching properties, maintaining an almost perfect reversible photochromic behavior with a high fluorescence to dark state ratio. We have crystallized and subsequently determined to 1.7 A resolution the crystal structure of the fluorescent state of Dronpa. The chromophore was observed to be in its anionic form, adopting a cis co-planar conformation. Comparative structural analysis of non-photoactivatable and photoactivatable GFPs, together with site-directed mutagenesis of a position (Cys62) within the Dronpa chromophore, has provided a basis for understanding Dronpa photoactivation. Specifically, we propose a model of reversible photoactivation whereby irradiation with light leads to subtle conformational changes within and around the environment of the chromophore that promotes proton transfer along an intricate polar network.
-===The 1.7 A crystal structure of Dronpa: a photoswitchable green fluorescent protein===
+The 1.7 A crystal structure of Dronpa: a photoswitchable green fluorescent protein.,Wilmann PG, Turcic K, Battad JM, Wilce MC, Devenish RJ, Prescott M, Rossjohn J J Mol Biol. 2006 Nov 24;364(2):213-24. Epub 2006 Sep 3. PMID:17010376<ref>PMID:17010376</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2ie2" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_17010376}}, adds the Publication Abstract to the page
+*[[Dronpa|Dronpa]]
-(as it appears on PubMed at http://www.pubmed.gov), where 17010376 is the PubMed ID number.
+*[[Green Fluorescent Protein 3D structures|Green Fluorescent Protein 3D structures]]
--->
+== References ==
-{{ABSTRACT_PUBMED_17010376}}
+<references/>
+__TOC__
-==About this Structure==
+</StructureSection>
-IE2 is a 6 chains structure of sequences from [http://en.wikipedia.org/wiki/Echinophyllia_sp._sc22 Echinophyllia sp. sc22]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IE2 OCA].
+[[Category: Echinophyllia sp. SC22]]
+[[Category: Large Structures]]
-==Reference==
+[[Category: Rossjohn J]]
-<ref group="xtra">PMID:17010376</ref><references group="xtra"/>
+[[Category: Wilmann PG]]
-[[Category: Echinophyllia sp. sc22]]
-[[Category: Rossjohn, J.]]
-[[Category: Wilmann, P G.]]
-[[Category: Beta barrel]]
-[[Category: Luminescent protein]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul  1 09:49:40 2009''