View source for 9vr3


==Trapped reaction intermediate of the DNA Repair Enzyme Endonuclease VIII with DNA containing G opposite the crosslink==
<StructureSection load='9vr3' size='340' side='right'caption='[[9vr3]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[9vr3]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_BL21 Escherichia coli BL21] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9VR3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9VR3 FirstGlance]. <br>
</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>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PED:PENTANE-3,4-DIOL-5-PHOSPHATE'>PED</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=9vr3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9vr3 OCA], [https://pdbe.org/9vr3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9vr3 RCSB], [https://www.ebi.ac.uk/pdbsum/9vr3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9vr3 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/A0A024L4H5_ECOLX A0A024L4H5_ECOLX] Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases. Has a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine. Has AP (apurinic/apyrimidinic) lyase activity and introduces nicks in the DNA strand. Cleaves the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates.[HAMAP-Rule:MF_01253]
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</StructureSection>
[[Category: Escherichia coli BL21]]
[[Category: Large Structures]]
[[Category: Synthetic construct]]
[[Category: Borshchevskiy VI]]
[[Category: Bulgakov NA]]
[[Category: Endutkin AV]]
[[Category: Kapranov IA]]
[[Category: Shevtsov MB]]
[[Category: Yudkina AV]]
[[Category: Zharkov DO]]