1rwj: Difference between revisions

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-[[Image:1rwj.png|left|200px]]
-<!--
+==c7-type three-heme cytochrome domain==
-The line below this paragraph, containing "STRUCTURE_1rwj", creates the "Structure Box" on the page.
+<StructureSection load='1rwj' size='340' side='right'caption='[[1rwj]], [[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'>[[1rwj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacter_sulfurreducens Geobacter sulfurreducens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RWJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RWJ 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=HEC:HEME+C'>HEC</scene></td></tr>
-{{STRUCTURE_1rwj|  PDB=1rwj  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1rwj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rwj OCA], [https://pdbe.org/1rwj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rwj RCSB], [https://www.ebi.ac.uk/pdbsum/1rwj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rwj ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q74BP5_GEOSL Q74BP5_GEOSL]
+== 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/rw/1rwj_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=1rwj ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The structure of a novel c(7)-type cytochrome domain that has two bishistidine coordinated hemes and one heme with histidine, methionine coordination (where the sixth ligand is a methionine residue) was determined at 1.7 A resolution. This domain is a representative of domains that form three polymers encoded by the Geobacter sulfurreducens genome. Two of these polymers consist of four and one protein of nine c(7)-type domains with a total of 12 and 27 hemes, respectively. Four individual domains (termed A, B, C, and D) from one such multiheme cytochrome c (ORF03300) were cloned and expressed in Escherichia coli. The domain C produced diffraction quality crystals from 2.4 M sodium malonate (pH 7). The structure was solved by MAD method and refined to an R-factor of 19.5% and R-free of 21.8%. Unlike the two c(7) molecules with known structures, one from G. sulfurreducens (PpcA) and one from Desulfuromonas acetoxidans where all three hemes are bishistidine coordinated, this domain contains a heme which is coordinated by a methionine and a histidine residue. As a result, the corresponding heme could have a higher potential than the other two hemes. The apparent midpoint reduction potential, E(app), of domain C is -105 mV, 50 mV higher than that of PpcA.
-===c7-type three-heme cytochrome domain===
+Structure of a novel c7-type three-heme cytochrome domain from a multidomain cytochrome c polymer.,Pokkuluri PR, Londer YY, Duke NE, Erickson J, Pessanha M, Salgueiro CA, Schiffer M Protein Sci. 2004 Jun;13(6):1684-92. Epub 2004 May 7. PMID:15133162<ref>PMID:15133162</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_15133162}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1rwj" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 15133162 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15133162}}
+__TOC__
+</StructureSection>
-==About this Structure==
-[[1rwj]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacter_sulfurreducens Geobacter sulfurreducens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RWJ OCA].
-==Reference==
-<ref group="xtra">PMID:15133162</ref><ref group="xtra">PMID:14744127</ref><references group="xtra"/>
 [[Category: Geobacter sulfurreducens]]
-[[Category: Duke, N E.C.]]
+[[Category: Large Structures]]
-[[Category: Erickson, J.]]
+[[Category: Duke NEC]]
-[[Category: Londer, Y Y.]]
+[[Category: Erickson J]]
-[[Category: Pessanha, M.]]
+[[Category: Londer YY]]
-[[Category: Pokkuluri, P R.]]
+[[Category: Pessanha M]]
-[[Category: Salgueiro, C A.]]
+[[Category: Pokkuluri PR]]
-[[Category: Schiffer, M.]]
+[[Category: Salgueiro CA]]
-[[Category: Cytochrome c7]]
+[[Category: Schiffer M]]
-[[Category: Electron transport]]
-[[Category: Geobacter metallireducen]]
-[[Category: Geobacter sulfurreducen]]
-[[Category: Heme coordination in c-type cytochrome]]
-[[Category: Multiheme cytochrome c]]