1v67: Difference between revisions

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-{{Seed}}
-[[Image:1v67.png|left|200px]]
-<!--
+==Structure of ferripyochelin binding protein from pyrococcus horikoshii OT3==
-The line below this paragraph, containing "STRUCTURE_1v67", creates the "Structure Box" on the page.
+<StructureSection load='1v67' size='340' side='right'caption='[[1v67]], [[Resolution|resolution]] 2.30&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'>[[1v67]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii_OT3 Pyrococcus horikoshii OT3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V67 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1V67 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]] 2.3&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-{{STRUCTURE_1v67|  PDB=1v67  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1v67 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v67 OCA], [https://pdbe.org/1v67 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1v67 RCSB], [https://www.ebi.ac.uk/pdbsum/1v67 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1v67 ProSAT], [https://www.topsan.org/Proteins/RSGI/1v67 TOPSAN]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/O59257_PYRHO O59257_PYRHO]
+== 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/v6/1v67_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=1v67 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Carbonic anhydrases are zinc-containing metalloenzymes that catalyze the interconversion of carbon dioxide and bicarbonate. Three crystal structures of gamma-class carbonic anhydrase (one of which is bound to a bicarbonate molecule) from the aerobic OT3 strain of the hyperthermophilic archeon Pyrococcus horikoshii have been solved by molecular replacement in space group F4(1)32. The asymmetric unit contains a monomer of 173 amino acids and a catalytic Zn2+ ion. The protein fold is a regular prism formed by a left-handed beta-helix, similar to previously reported structures. The active-site Zn2+ ion located at the interface between the two monomers is bound to three histidyl residues and a water molecule in a tetrahedral fashion. In addition to the 20 beta-strands comprising the beta-helix, there is also a long C-terminal alpha-helix. For the first time, Ca2+ ions have been observed in addition to the catalytic Zn2+ ion. It is hypothesized that Tyr159 (which corresponds to the catalytically important Asn202 in previously reported structures) utilizes C-H...pi interactions to fulfill its functions. This study may shed light on the catalytic mechanism of the enzyme and throw open new questions on the mechanism of product removal in carbonic anhydrases.
-===Structure of ferripyochelin binding protein from pyrococcus horikoshii OT3===
+Observation of a calcium-binding site in the gamma-class carbonic anhydrase from Pyrococcus horikoshii.,Jeyakanthan J, Rangarajan S, Mridula P, Kanaujia SP, Shiro Y, Kuramitsu S, Yokoyama S, Sekar K Acta Crystallogr D Biol Crystallogr. 2008 Oct;64(Pt 10):1012-9. Epub 2008, Sep 19. PMID:18931408<ref>PMID:18931408</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1v67" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_18931408}}, adds the Publication Abstract to the page
+*[[Carbonic anhydrase 3D structures|Carbonic anhydrase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 18931408 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_18931408}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-V67 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii_ot3 Pyrococcus horikoshii ot3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V67 OCA].
+[[Category: Pyrococcus horikoshii OT3]]
+[[Category: Jeyakanthan J]]
-==Reference==
+[[Category: Tahirov TH]]
-Observation of a calcium-binding site in the gamma-class carbonic anhydrase from Pyrococcus horikoshii., Jeyakanthan J, Rangarajan S, Mridula P, Kanaujia SP, Shiro Y, Kuramitsu S, Yokoyama S, Sekar K, Acta Crystallogr D Biol Crystallogr. 2008 Oct;64(Pt 10):1012-9. Epub 2008, Sep 19. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18931408 18931408]
-[[Category: Carbonate dehydratase]]
-[[Category: Pyrococcus horikoshii ot3]]
-[[Category: Jeyakanthan, J.]]
-[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
-[[Category: Tahirov, T H.]]
-[[Category: Beta-helix]]
-[[Category: Bicarbonate]]
-[[Category: Calcium binding]]
-[[Category: Carbonic anhydrase]]
-[[Category: Lyase]]
-[[Category: Riken structural genomics/proteomics initiative]]
-[[Category: Rsgi]]
-[[Category: Structural genomic]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Nov 27 13:47:05 2008''