2j8x

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[[Image:2j8x.png|left|200px]]
 
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{{STRUCTURE_2j8x| PDB=2j8x | SCENE= }}
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==Epstein-Barr virus uracil-DNA glycosylase in complex with Ugi from PBS-2==
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<StructureSection load='2j8x' size='340' side='right'caption='[[2j8x]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2j8x]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_phage_PBS2 Bacillus phage PBS2] and [https://en.wikipedia.org/wiki/Human_gammaherpesvirus_4 Human gammaherpesvirus 4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2J8X OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2J8X FirstGlance]. <br>
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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]] 2.3&#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=URE:UREA'>URE</scene></td></tr>
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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=2j8x FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2j8x OCA], [https://pdbe.org/2j8x PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2j8x RCSB], [https://www.ebi.ac.uk/pdbsum/2j8x PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2j8x ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/UNG_EBVB9 UNG_EBVB9] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or deamination of cytosines. Therefore may reduce deleterious uracil incorporation into the viral genome, particularly in terminally differentiated cells which lack DNA repair enzymes.[HAMAP-Rule:MF_04046]
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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/j8/2j8x_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=2j8x 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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Epstein-Barr virus (EBV) is a human gamma-herpesvirus. Within its 86 open reading frame containing genome, two enzymes avoiding uracil incorporation into DNA can be found: uracil triphosphate hydrolase and uracil-DNA glycosylase (UNG). The latter one excises uracil bases that are due to cytosine deamination or uracil misincorporation from double-stranded DNA substrates. The EBV enzyme belongs to family 1 UNGs. We solved the three-dimensional structure of EBV UNG in complex with the uracil-DNA glycosylase inhibitor protein (Ugi) from bacteriophage PBS-2 at a resolution of 2.3 A by X-ray crystallography. The structure of EBV UNG encoded by the BKRF3 reading frame shows the excellent global structural conservation within the solved examples of family 1 enzymes. Four out of the five catalytic motifs are completely conserved, whereas the fifth one, the leucine loop, carries a seven residue insertion. Despite this insertion, catalytic constants of EBV UNG are similar to those of other UNGs. Modelling of the EBV UNG-DNA complex shows that the longer leucine loop still contacts DNA and is likely to fulfil its role of DNA binding and deformation differently than the enzymes with previously solved structures. We could show that despite the evolutionary distance of EBV UNG from the natural host protein, bacteriophage Ugi binds with an inhibitory constant of 8 nM to UNG. This is due to an excellent specificity of Ugi for conserved elements of UNG, four of them corresponding to catalytic motifs and a fifth one corresponding to an important beta-turn structuring the catalytic site.
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===EPSTEIN-BARR VIRUS URACIL-DNA GLYCOSYLASE IN COMPLEX WITH UGI FROM PBS-2===
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New insights on the role of the gamma-herpesvirus uracil-DNA glycosylase leucine loop revealed by the structure of the Epstein-Barr virus enzyme in complex with an inhibitor protein.,Geoui T, Buisson M, Tarbouriech N, Burmeister WP J Mol Biol. 2007 Feb 9;366(1):117-31. Epub 2006 Nov 7. PMID:17157317<ref>PMID:17157317</ref>
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{{ABSTRACT_PUBMED_17157317}}
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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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==About this Structure==
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<div class="pdbe-citations 2j8x" style="background-color:#fffaf0;"></div>
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[[2j8x]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_phage_pbs2 Bacillus phage pbs2] and [http://en.wikipedia.org/wiki/Human_herpesvirus_4 Human herpesvirus 4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2J8X OCA].
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==See Also==
==See Also==
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*[[DNA glycosylate|DNA glycosylate]]
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*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
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*[[Uracil glycosylate inhibitor|Uracil glycosylate inhibitor]]
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*[[Uracil glycosylase inhibitor|Uracil glycosylase inhibitor]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:017157317</ref><references group="xtra"/>
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__TOC__
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[[Category: Bacillus phage pbs2]]
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</StructureSection>
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[[Category: Human herpesvirus 4]]
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[[Category: Bacillus phage PBS2]]
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[[Category: Uridine nucleosidase]]
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[[Category: Human gammaherpesvirus 4]]
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[[Category: Buisson, M.]]
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[[Category: Large Structures]]
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[[Category: Burmeister, W P.]]
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[[Category: Buisson M]]
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[[Category: Geoui, T.]]
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[[Category: Burmeister WP]]
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[[Category: Tarbouriech, N.]]
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[[Category: Geoui T]]
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[[Category: Dna repair]]
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[[Category: Tarbouriech N]]
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[[Category: Ebv]]
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[[Category: Epstein-barr virus]]
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[[Category: Hydrolase]]
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[[Category: Hydrolase-inhibitor complex]]
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[[Category: Lytic protein]]
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[[Category: Uracil- dna glycosylase]]
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[[Category: Uracil-dna glycosylase inhibitor]]
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Current revision

Epstein-Barr virus uracil-DNA glycosylase in complex with Ugi from PBS-2

PDB ID 2j8x

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