2ckf: Difference between revisions

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{{Seed}}
[[Image:2ckf.png|left|200px]]


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==Crystal Structure of the Terminal Component of the PAH-hydroxylating Dioxygenase from Sphingomonas sp CHY-1==
The line below this paragraph, containing "STRUCTURE_2ckf", creates the "Structure Box" on the page.
<StructureSection load='2ckf' size='340' side='right'caption='[[2ckf]], [[Resolution|resolution]] 1.85&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'>[[2ckf]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Sphingomonas_sp._CHY-1 Sphingomonas sp. CHY-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CKF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CKF 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]] 1.85&#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=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr>
{{STRUCTURE_2ckf|  PDB=2ckf  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2ckf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ckf OCA], [https://pdbe.org/2ckf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ckf RCSB], [https://www.ebi.ac.uk/pdbsum/2ckf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ckf ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q65AT1_9SPHN Q65AT1_9SPHN]
== 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/ck/2ckf_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=2ckf ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Ring-hydroxylating dioxygenases are multicomponent bacterial enzymes that catalyze the first step in the oxidative degradation of aromatic hydrocarbons. The dioxygenase from Sphingomonas CHY-1 is unique in that it can oxidize a wide range of polycyclic aromatic hydrocarbons (PAHs). With a crystal structure similar to that of the seven other known dioxygenases, its catalytic domain features the largest hydrophobic substrate binding cavity characterized so far. Molecular modeling studies indicated that the catalytic cavity is large enough to accommodate a five-ring benzo[a]pyrene molecule. The predicted positions of this and other PAHs in the substrate binding pocket are consistent with the product regio- and stereo-selectivity of the enzyme.


===CRYSTAL STRUCTURE OF THE TERMINAL COMPONENT OF THE PAH-HYDROXYLATING DIOXYGENASE FROM SPHINGOMONAS SP CHY-1===
The catalytic pocket of the ring-hydroxylating dioxygenase from Sphingomonas CHY-1.,Jakoncic J, Jouanneau Y, Meyer C, Stojanoff V Biochem Biophys Res Commun. 2007 Jan 26;352(4):861-6. Epub 2006 Dec 4. PMID:17157819<ref>PMID:17157819</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2ckf" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_17157819}}, adds the Publication Abstract to the page
*[[Dioxygenase 3D structures|Dioxygenase 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 17157819 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_17157819}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
2CKF is a 6 chains structure of sequences from [http://en.wikipedia.org/wiki/Bacteria Bacteria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CKF OCA].
[[Category: Sphingomonas sp. CHY-1]]
 
[[Category: Jakoncic J]]
==Reference==
[[Category: Jouanneau Y]]
<ref group="xtra">PMID:17157819</ref><references group="xtra"/>
[[Category: Meyer C]]
[[Category: Bacteria]]
[[Category: Stojanoff V]]
[[Category: Jakoncic, J.]]
[[Category: Jouanneau, Y.]]
[[Category: Meyer, C.]]
[[Category: Stojanoff, V.]]
[[Category: High-molecular-weight polycyclic aromatic hydrocarbon]]
[[Category: Oxidoreductase]]
[[Category: Pyrene dioxygenase]]
[[Category: Rieske non heme iron dioxygenase]]
[[Category: Ring-hydroxylating dioxygenase]]
 
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Retrieved from "https://proteopedia.org/2ckf"