3f10: Difference between revisions

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[[Image:3f10.png|left|200px]]


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==Crystal structure of Clostridium Acetobutylicum 8-oxoguanine DNA glycosylase in complex with 8-oxoguanosine==
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<StructureSection load='3f10' size='340' side='right'caption='[[3f10]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
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== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[3f10]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_acetobutylicum Clostridium acetobutylicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F10 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3F10 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>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8HG:2-DEOXY-8-OXOGUANOSINE'>8HG</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
{{STRUCTURE_3f10|  PDB=3f10  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3f10 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f10 OCA], [https://pdbe.org/3f10 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3f10 RCSB], [https://www.ebi.ac.uk/pdbsum/3f10 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3f10 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q97FM4_CLOAB Q97FM4_CLOAB]
== 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/f1/3f10_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=3f10 ConSurf].
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== Publication Abstract from PubMed ==
DNA is subject to a multitude of oxidative damages generated by oxidizing agents from metabolism and exogenous sources and by ionizing radiation. Guanine is particularly vulnerable to oxidation, and the most common oxidative product 8-oxoguanine (8-oxoG) is the most prevalent lesion observed in DNA molecules. 8-OxoG can form a normal Watson-Crick pair with cytosine (8-oxoG:C), but it can also form a stable Hoogsteen pair with adenine (8-oxoG:A), leading to a G:C--&gt;T:A transversion after replication. Fortunately, 8-oxoG is recognized and excised by either of two DNA glycosylases of the base excision repair pathway: formamidopyrimidine-DNA glycosylase and 8-oxoguanine DNA glycosylase (Ogg). While Clostridium acetobutylicum Ogg (CacOgg) DNA glycosylase can specifically recognize and remove 8-oxoG, it displays little preference for the base opposite the lesion, which is unusual for a member of the Ogg1 family. This work describes the crystal structures of CacOgg in its apo form and in complex with 8-oxo-2'-deoxyguanosine. A structural comparison between the apo form and the liganded form of the enzyme reveals a structural reorganization of the C-terminal domain upon binding of 8-oxoG, similar to that reported for human OGG1. A structural comparison of CacOgg with human OGG1, in complex with 8-oxoG containing DNA, provides a structural rationale for the lack of opposite base specificity displayed by CacOgg.


===Crystal structure of Clostridium Acetobutylicum 8-oxoguanine DNA glycosylase in complex with 8-oxoguanosine===
Structural characterization of Clostridium acetobutylicum 8-oxoguanine DNA glycosylase in its apo form and in complex with 8-oxodeoxyguanosine.,Faucher F, Robey-Bond SM, Wallace SS, Doublie S J Mol Biol. 2009 Apr 3;387(3):669-79. Epub 2009 Feb 9. PMID:19361427<ref>PMID:19361427</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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{{ABSTRACT_PUBMED_19361427}}
 
==About this Structure==
[[3f10]] is a 1 chain structure of [[DNA glycosylate]] with sequence from [http://en.wikipedia.org/wiki/Clostridium_acetobutylicum Clostridium acetobutylicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F10 OCA].


==See Also==
==See Also==
*[[DNA glycosylate]]
*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
 
== References ==
==Reference==
<references/>
<ref group="xtra">PMID:019361427</ref><references group="xtra"/>
__TOC__
</StructureSection>
[[Category: Clostridium acetobutylicum]]
[[Category: Clostridium acetobutylicum]]
[[Category: Doublie, S.]]
[[Category: Large Structures]]
[[Category: Faucher, F.]]
[[Category: Doublie S]]
[[Category: 8-oxoguanine]]
[[Category: Faucher F]]
[[Category: 8oxog]]
[[Category: 8oxoguanine]]
[[Category: Glycosylase]]
[[Category: Guanine]]
[[Category: Hydrolase]]
[[Category: Lyase]]
[[Category: Ogg]]
Retrieved from "https://proteopedia.org/3f10"