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[[Image:2dp6.gif|left|200px]]<br /><applet load="2dp6" size="350" color="white" frame="true" align="right" spinBox="true"
caption="2dp6, resolution 1.80&Aring;" />
'''Crystal structure of uracil-DNA glycosylase in complex with AP:C containing DNA'''<br />


==About this Structure==
==Crystal structure of uracil-DNA glycosylase in complex with AP:C containing DNA==
2DP6 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus] with <scene name='pdbligand=SF4:'>SF4</scene>, <scene name='pdbligand=2HP:'>2HP</scene>, <scene name='pdbligand=GOL:'>GOL</scene> and <scene name='pdbligand=EOH:'>EOH</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DP6 OCA].
<StructureSection load='2dp6' size='340' side='right'caption='[[2dp6]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
[[Category: Single protein]]
== Structural highlights ==
[[Category: Thermus thermophilus]]
<table><tr><td colspan='2'>[[2dp6]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DP6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DP6 FirstGlance]. <br>
[[Category: Hoseki, J.]]
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
[[Category: Kosaka, H.]]
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2HP:DIHYDROGENPHOSPHATE+ION'>2HP</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=ORP:2-DEOXY-5-PHOSPHONO-RIBOSE'>ORP</scene></td></tr>
[[Category: Kuramitsu, S.]]
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2dp6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dp6 OCA], [https://pdbe.org/2dp6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dp6 RCSB], [https://www.ebi.ac.uk/pdbsum/2dp6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dp6 ProSAT], [https://www.topsan.org/Proteins/RSGI/2dp6 TOPSAN]</span></td></tr>
[[Category: Masui, R.]]
</table>
[[Category: Nakagawa, N.]]
== Function ==
[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
[https://www.uniprot.org/uniprot/UDGB_THET8 UDGB_THET8] DNA glycosylase with broad substrate specificity. Can remove uracil from double-stranded DNA containing either a U/G, U/A, U/C or U/T base pair (PubMed:12000829, PubMed:17870091, PubMed:24838246). Can also excise hypoxanthine from double-stranded DNA containing G/I, T/I, and A/I base pairs, xanthine from both double-stranded and single stranded DNA, thymine from G/T mismatched DNA, 5'-hydroxymethyluracil and 5'-fluorouracil (PubMed:17870091, PubMed:24838246).<ref>PMID:12000829</ref> <ref>PMID:17870091</ref> <ref>PMID:24838246</ref>
[[Category: 2HP]]
== Evolutionary Conservation ==
[[Category: EOH]]
[[Image:Consurf_key_small.gif|200px|right]]
[[Category: GOL]]
Check<jmol>
[[Category: SF4]]
  <jmolCheckbox>
[[Category: base excision repair]]
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dp/2dp6_consurf.spt"</scriptWhenChecked>
[[Category: dna complex]]
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
[[Category: iron/sulfer cluster]]
    <text>to colour the structure by Evolutionary Conservation</text>
[[Category: national project on protein structural and functional analyses]]
  </jmolCheckbox>
[[Category: nppsfa]]
</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=2dp6 ConSurf].
[[Category: riken structural genomics/proteomics initiative]]
<div style="clear:both"></div>
[[Category: rsgi]]
[[Category: structural genomics]]
[[Category: thermophile]]
[[Category: uracil-dna glycosylase]]


''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 17:01:06 2008''
==See Also==
*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Thermus thermophilus HB8]]
[[Category: Hoseki J]]
[[Category: Kosaka H]]
[[Category: Kuramitsu S]]
[[Category: Masui R]]
[[Category: Nakagawa N]]
Retrieved from "https://proteopedia.org/2dp6"