2dd5

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{{Seed}}
 
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[[Image:2dd5.png|left|200px]]
 
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==Thiocyanate hydrolase (SCNase) from Thiobacillus thioparus native holo-enzyme==
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The line below this paragraph, containing "STRUCTURE_2dd5", creates the "Structure Box" on the page.
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<StructureSection load='2dd5' size='340' side='right'caption='[[2dd5]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2dd5]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Thiobacillus_thioparus Thiobacillus thioparus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DD5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DD5 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</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&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3CO:COBALT+(III)+ION'>3CO</scene>, <scene name='pdbligand=CSD:3-SULFINOALANINE'>CSD</scene>, <scene name='pdbligand=CSO:S-HYDROXYCYSTEINE'>CSO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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{{STRUCTURE_2dd5| PDB=2dd5 | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2dd5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dd5 OCA], [https://pdbe.org/2dd5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dd5 RCSB], [https://www.ebi.ac.uk/pdbsum/2dd5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dd5 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/SCNA_THITI SCNA_THITI] Involved in the degradation of thiocyanate.
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dd/2dd5_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=2dd5 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Thiocyanate hydrolase (SCNase) of Thiobacillus thioparus THI115 is a cobalt(III)-containing enzyme catalyzing the degradation of thiocyanate to carbonyl sulfide and ammonia. We determined the crystal structures of the apo- and native SCNases at a resolution of 2.0 A. SCNases in both forms had a conserved hetero-dodecameric structure, (alphabetagamma)(4). Four alphabetagamma hetero-trimers were structurally equivalent. One alphabetagamma hetero-trimer was composed of the core domain and the betaN domain, which was located at the center of the molecule and linked the hetero-trimers with novel quaternary interfaces. In both the apo- and native SCNases, the core domain was structurally conserved between those of iron and cobalt-types of nitrile hydratase (NHase). Native SCNase possessed the post-translationally modified cysteine ligands, gammaCys131-SO(2)H and gammaCys133-SOH like NHases. However, the low-spin cobalt(III) was found to be in the distorted square-pyramidal geometry, which had not been reported before in any protein. The size as well as the electrostatic properties of the substrate-binding pocket was totally different from NHases with respect to the charge distribution and the substrate accessibility, which rationally explains the differences in the substrate preference between SCNase and NHase.
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===Thiocyanate hydrolase (SCNase) from Thiobacillus thioparus native holo-enzyme===
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Structure of thiocyanate hydrolase: a new nitrile hydratase family protein with a novel five-coordinate cobalt(III) center.,Arakawa T, Kawano Y, Kataoka S, Katayama Y, Kamiya N, Yohda M, Odaka M J Mol Biol. 2007 Mar 9;366(5):1497-509. Epub 2006 Dec 8. PMID:17222425<ref>PMID:17222425</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_17222425}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 2dd5" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 17222425 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_17222425}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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2DD5 is a 12 chains structure of sequences from [http://en.wikipedia.org/wiki/Thiobacillus_thioparus Thiobacillus thioparus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DD5 OCA].
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==Reference==
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<ref group="xtra">PMID:17222425</ref><references group="xtra"/>
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[[Category: Thiobacillus thioparus]]
[[Category: Thiobacillus thioparus]]
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[[Category: Thiocyanate hydrolase]]
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[[Category: Arakawa T]]
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[[Category: Arakawa, T.]]
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[[Category: Kamiya N]]
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[[Category: Kamiya, N.]]
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[[Category: Kataoka S]]
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[[Category: Kataoka, S.]]
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[[Category: Katayama Y]]
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[[Category: Katayama, Y.]]
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[[Category: Kawano Y]]
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[[Category: Kawano, Y.]]
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[[Category: Odaka M]]
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[[Category: Odaka, M.]]
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[[Category: Yohda M]]
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[[Category: Yohda, M.]]
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[[Category: Carbonyl sulfide]]
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[[Category: Claw setting]]
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[[Category: Cobalt]]
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[[Category: Complex]]
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[[Category: Enzyme]]
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[[Category: Hydrolase]]
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[[Category: Metalloprotein]]
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[[Category: Model complex]]
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[[Category: Nitrile hydratase]]
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[[Category: Non-corrin]]
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[[Category: Protein]]
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[[Category: Sulfenic acid]]
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[[Category: Sulfinic acid]]
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[[Category: Thiocyanate]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 18:08:33 2009''
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Current revision

Thiocyanate hydrolase (SCNase) from Thiobacillus thioparus native holo-enzyme

PDB ID 2dd5

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