2a3m: Difference between revisions

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-{{Seed}}
-[[Image:2a3m.png|left|200px]]
-<!--
+==Structure of Desulfovibrio desulfuricans G20 tetraheme cytochrome (oxidized form)==
-The line below this paragraph, containing "STRUCTURE_2a3m", creates the "Structure Box" on the page.
+<StructureSection load='2a3m' size='340' side='right'caption='[[2a3m]], [[Resolution|resolution]] 1.50&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'>[[2a3m]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Oleidesulfovibrio_alaskensis_G20 Oleidesulfovibrio alaskensis G20]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2A3M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2A3M 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]] 1.5&#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_2a3m|  PDB=2a3m  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2a3m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2a3m OCA], [https://pdbe.org/2a3m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2a3m RCSB], [https://www.ebi.ac.uk/pdbsum/2a3m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2a3m ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q30WH0_OLEA2 Q30WH0_OLEA2]
+== 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/a3/2a3m_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=2a3m ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The structure of the type I tetraheme cytochrome c(3) from Desulfovibrio desulfuricans G20 was determined to 1.5 Angstrom by X-ray crystallography. In addition to the oxidized form, the structure of the molybdate-bound form of the protein was determined from oxidized crystals soaked in sodium molybdate. Only small structural shifts were obtained with metal binding, consistent with the remarkable structural stability of this protein. In vitro experiments with pure cytochrome showed that molybdate could oxidize the reduced cytochrome, although not as rapidly as U(VI) present as uranyl acetate. Alterations in the overall conformation and thermostability of the metal-oxidized protein were investigated by circular dichroism studies. Again, only small changes in protein structure were documented. The location of the molybdate ion near heme IV in the crystal structure suggested heme IV as the site of electron exit from the reduced cytochrome and implicated Lys14 and Lys56 in binding. Analysis of structurally conserved water molecules in type I cytochrome c(3) crystal structures identified interactions predicted to be important for protein stability and possibly for intramolecular electron transfer among heme molecules.
-===Structure of Desulfovibrio desulfuricans G20 tetraheme cytochrome (oxidized form)===
+Desulfovibrio desulfuricans G20 tetraheme cytochrome structure at 1.5 Angstrom and cytochrome interaction with metal complexes.,Pattarkine MV, Tanner JJ, Bottoms CA, Lee YH, Wall JD J Mol Biol. 2006 May 19;358(5):1314-27. Epub 2006 Mar 23. PMID:16580681<ref>PMID:16580681</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2a3m" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_16580681}}, adds the Publication Abstract to the page
+*[[Cytochrome C 3D structures|Cytochrome C 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 16580681 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_16580681}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-A3M is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Desulfovibrio_desulfuricans Desulfovibrio desulfuricans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2A3M OCA].
+[[Category: Oleidesulfovibrio alaskensis G20]]
+[[Category: Bottoms CA]]
-==Reference==
+[[Category: Lee YH]]
-Desulfovibrio desulfuricans G20 tetraheme cytochrome structure at 1.5 Angstrom and cytochrome interaction with metal complexes., Pattarkine MV, Tanner JJ, Bottoms CA, Lee YH, Wall JD, J Mol Biol. 2006 May 19;358(5):1314-27. Epub 2006 Mar 23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16580681 16580681]
+[[Category: Pattarkine MV]]
-[[Category: Desulfovibrio desulfuricans]]
+[[Category: Tanner JJ]]
-[[Category: Single protein]]
+[[Category: Wall JD]]
-[[Category: Bottoms, C A.]]
-[[Category: Lee, Y H.]]
-[[Category: Pattarkine, M V.]]
-[[Category: Tanner, J J.]]
-[[Category: Wall, J D.]]
-[[Category: Cytochrome c3]]
-[[Category: Desulfovibrio]]
-[[Category: Tetraheme cytochrome]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 02:46:23 2008''