2x5u: Difference between revisions

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-[[Image:2x5u.png|left|200px]]
-<!--
+==80 microsecond Laue diffraction snapshot from crystals of a photosynthetic reaction centre without illumination.==
-The line below this paragraph, containing "STRUCTURE_2x5u", creates the "Structure Box" on the page.
+<StructureSection load='2x5u' size='340' side='right'caption='[[2x5u]], [[Resolution|resolution]] 3.00&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'>[[2x5u]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X5U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2X5U 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]] 3&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCB:BACTERIOCHLOROPHYLL+B'>BCB</scene>, <scene name='pdbligand=BPB:BACTERIOPHEOPHYTIN+B'>BPB</scene>, <scene name='pdbligand=FE2:FE+(II)+ION'>FE2</scene>, <scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=MQ7:MENAQUINONE-7'>MQ7</scene></td></tr>
-{{STRUCTURE_2x5u|  PDB=2x5u  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2x5u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x5u OCA], [https://pdbe.org/2x5u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2x5u RCSB], [https://www.ebi.ac.uk/pdbsum/2x5u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2x5u ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/CYCR_BLAVI CYCR_BLAVI] The reaction center of purple bacteria contains a tightly bound cytochrome molecule which re-reduces the photo oxidized primary electron donor.<ref>PMID:10736158</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/x5/2x5u_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=2x5u ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Photosynthetic reaction centers convert the energy content of light into a transmembrane potential difference and so provide the major pathway for energy input into the biosphere. We applied time-resolved Laue diffraction to study light-induced conformational changes in the photosynthetic reaction center complex of Blastochloris viridis. The side chain of TyrL162, which lies adjacent to the special pair of bacteriochlorophyll molecules that are photooxidized in the primary light conversion event of photosynthesis, was observed to move 1.3 angstroms closer to the special pair after photoactivation. Free energy calculations suggest that this movement results from the deprotonation of this conserved tyrosine residue and provides a mechanism for stabilizing the primary charge separation reactions of photosynthesis.
-===80 microsecond laue diffraction snapshot from crystals of a photosynthetic reaction centre without illumination.===
+Light-induced structural changes in a photosynthetic reaction center caught by Laue diffraction.,Wohri AB, Katona G, Johansson LC, Fritz E, Malmerberg E, Andersson M, Vincent J, Eklund M, Cammarata M, Wulff M, Davidsson J, Groenhof G, Neutze R Science. 2010 Apr 30;328(5978):630-3. PMID:20431017<ref>PMID:20431017</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_20431017}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 2x5u" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 20431017 is the PubMed ID number.
--->
-{{ABSTRACT_PUBMED_20431017}}
-==About this Structure==
-[[2x5u]] is a 4 chain structure of [[Cytochrome c]] with sequence from [http://en.wikipedia.org/wiki/Blastochloris_viridis Blastochloris viridis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X5U OCA].
 ==See Also==
-*[[Cytochrome c]]
+*[[Cytochrome C 3D structures|Cytochrome C 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:020431017</ref><references group="xtra"/>
+__TOC__
+</StructureSection>
 [[Category: Blastochloris viridis]]
-[[Category: Andersson, M.]]
+[[Category: Large Structures]]
-[[Category: Cammarata, M.]]
+[[Category: Andersson M]]
-[[Category: Davidsson, J.]]
+[[Category: Cammarata M]]
-[[Category: Eklund, M.]]
+[[Category: Davidsson J]]
-[[Category: Fritz, E.]]
+[[Category: Eklund M]]
-[[Category: Groenhof, G.]]
+[[Category: Fritz E]]
-[[Category: Johansson, L C.]]
+[[Category: Groenhof G]]
-[[Category: Katona, G.]]
+[[Category: Johansson LC]]
-[[Category: Malmerberg, E.]]
+[[Category: Katona G]]
-[[Category: Neutze, R.]]
+[[Category: Malmerberg E]]
-[[Category: Vincent, J.]]
+[[Category: Neutze R]]
-[[Category: Wohri, A B.]]
+[[Category: Vincent J]]
-[[Category: Wulff, M.]]
+[[Category: Wohri AB]]
-[[Category: Cell membrane]]
+[[Category: Wulff M]]
-[[Category: Electron transport]]
-[[Category: Formylation]]
-[[Category: Lipidic-sponge phase]]
-[[Category: Lipid]]
-[[Category: Lipoprotein]]
-[[Category: Metal-binding]]
-[[Category: Photosynthesis]]
-[[Category: Transmembrane]]
-[[Category: Transport]]