1qdb: Difference between revisions

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-{{Seed}}
-[[Image:1qdb.png|left|200px]]
-<!--
+==CYTOCHROME C NITRITE REDUCTASE==
-The line below this paragraph, containing "STRUCTURE_1qdb", creates the "Structure Box" on the page.
+<StructureSection load='1qdb' size='340' side='right'caption='[[1qdb]], [[Resolution|resolution]] 1.90&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'>[[1qdb]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Sulfurospirillum_deleyianum Sulfurospirillum deleyianum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QDB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1QDB 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]] 1.9&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEC:HEME+C'>HEC</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_1qdb|  PDB=1qdb  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1qdb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1qdb OCA], [https://pdbe.org/1qdb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1qdb RCSB], [https://www.ebi.ac.uk/pdbsum/1qdb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1qdb ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/NRFA_SULDE NRFA_SULDE] Plays a role in nitrite reduction.[HAMAP-Rule:MF_01182]
+== 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/qd/1qdb_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=1qdb ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The enzyme cytochrome c nitrite reductase catalyses the six-electron reduction of nitrite to ammonia as one of the key steps in the biological nitrogen cycle, where it participates in the anaerobic energy metabolism of dissimilatory nitrate ammonification. Here we report on the crystal structure of this enzyme from the microorganism Sulfurospirillum deleyianum, which we solved by multiwavelength anomalous dispersion methods. We propose a reaction scheme for the transformation of nitrite based on structural and spectroscopic information. Cytochrome c nitrite reductase is a functional dimer, with 10 close-packed haem groups of type c and an unusual lysine-coordinated high-spin haem at the active site. By comparing the haem arrangement of this nitrite reductase with that of other multihaem cytochromes, we have been able to identify a family of proteins in which the orientation of haem groups is conserved whereas structure and function are not.
-===CYTOCHROME C NITRITE REDUCTASE===
+Structure of cytochrome c nitrite reductase.,Einsle O, Messerschmidt A, Stach P, Bourenkov GP, Bartunik HD, Huber R, Kroneck PM Nature. 1999 Jul 29;400(6743):476-80. PMID:10440380<ref>PMID:10440380</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1qdb" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_10440380}}, 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 10440380 is the PubMed ID number.
+*[[Cytochrome c nitrite reductase|Cytochrome c nitrite reductase]]
--->
+== References ==
-{{ABSTRACT_PUBMED_10440380}}
+<references/>
+__TOC__
-==About this Structure==
+</StructureSection>
-QDB is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Sulfurospirillum_deleyianum Sulfurospirillum deleyianum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QDB OCA].
+[[Category: Large Structures]]
-==Reference==
-Structure of cytochrome c nitrite reductase., Einsle O, Messerschmidt A, Stach P, Bourenkov GP, Bartunik HD, Huber R, Kroneck PM, Nature. 1999 Jul 29;400(6743):476-80. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10440380 10440380]
-[[Category: Single protein]]
 [[Category: Sulfurospirillum deleyianum]]
-[[Category: Einsle, O.]]
+[[Category: Einsle O]]
-[[Category: Huber, R.]]
+[[Category: Huber R]]
-[[Category: Kroneck, P M.H.]]
+[[Category: Kroneck PMH]]
-[[Category: Messerschmidt, A.]]
+[[Category: Messerschmidt A]]
-[[Category: Stach, P.]]
+[[Category: Stach P]]
-[[Category: C-type cytochrome lysine-coordinated heme nitrite reductase]]
-[[Category: Oxidoreductase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 16:16:06 2008''