3erx: Difference between revisions

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-{{Seed}}
-[[Image:3erx.png|left|200px]]
-<!--
+==High-resolution structure of Paracoccus pantotrophus pseudoazurin==
-The line below this paragraph, containing "STRUCTURE_3erx", creates the "Structure Box" on the page.
+<StructureSection load='3erx' size='340' side='right'caption='[[3erx]], [[Resolution|resolution]] 1.25&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'>[[3erx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Paracoccus_pantotrophus Paracoccus pantotrophus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ERX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ERX 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]] 1.25&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_3erx|  PDB=3erx  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3erx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3erx OCA], [https://pdbe.org/3erx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3erx RCSB], [https://www.ebi.ac.uk/pdbsum/3erx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3erx ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/AZUP_PARPN AZUP_PARPN] This soluble electron transfer copper protein is required for the inactivation of copper-containing nitrite reductase in the presence of oxygen.
+== 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/er/3erx_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=3erx ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Pseudoazurins are small type 1 copper proteins that are involved in the flow of electrons between various electron donors and acceptors in the bacterial periplasm, mostly under denitrifying conditions. The previously determined structure of Paracoccus pantotrophus pseudoazurin in the oxidized form was improved to a nominal resolution of 1.4 A, with R and R(free) values of 0.188 and 0.206, respectively. This high-resolution structure makes it possible to analyze the interactions between the monomers and the solvent structure in detail. Analysis of the high-resolution structure revealed the structural regions that are responsible for monomer-monomer recognition during dimer formation and for protein-protein interaction and that are important for partner recognition. The pseudoazurin structure was compared with other structures of various type 1 copper proteins and these were grouped into families according to similarities in their secondary structure; this may be useful in the annotation of copper proteins in newly sequenced genomes and in the identification of novel copper proteins.
-===High-resolution structure of Paracoccus pantotrophus pseudoazurin===
+The 1.4 A resolution structure of Paracoccus pantotrophus pseudoazurin.,Najmudin S, Pauleta SR, Moura I, Romao MJ Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Jun 1;66(Pt, 6):627-35. Epub 2010 May 25. PMID:20516588<ref>PMID:20516588</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3erx" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-ERX is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Paracoccus_pantotrophus Paracoccus pantotrophus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ERX OCA].
+*[[Pseudoazurin|Pseudoazurin]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Paracoccus pantotrophus]]
-[[Category: Moura, I.]]
+[[Category: Moura I]]
-[[Category: Najmudin, S.]]
+[[Category: Najmudin S]]
-[[Category: Pauleta, S R.]]
+[[Category: Pauleta SR]]
-[[Category: Romao, M J.]]
+[[Category: Romao MJ]]
-[[Category: Copper]]
-[[Category: Copper protein]]
-[[Category: Electron transport]]
-[[Category: High-resolution]]
-[[Category: Metal-binding]]
-[[Category: Paracoccus]]
-[[Category: Periplasm]]
-[[Category: Pseudoazurin]]
-[[Category: Transport]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 17 08:55:18 2010''