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4lzb

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{{STRUCTURE_4lzb| PDB=4lzb | SCENE= }}
 
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===Uracil binding pocket in Vaccinia virus uracil DNA glycosylase===
 
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==Function==
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==Uracil binding pocket in Vaccinia virus uracil DNA glycosylase==
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[[http://www.uniprot.org/uniprot/UNG_VACCA UNG_VACCA]] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine. Also part of a heterodimeric processivity factor which potentiates the DNA polymerase activity. Binds to DNA.
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<StructureSection load='4lzb' size='340' side='right'caption='[[4lzb]], [[Resolution|resolution]] 2.03&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[4lzb]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Vaccinia_virus Vaccinia virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LZB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4LZB 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]] 2.03&#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=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=URA:URACIL'>URA</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=4lzb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lzb OCA], [https://pdbe.org/4lzb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4lzb RCSB], [https://www.ebi.ac.uk/pdbsum/4lzb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4lzb ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/UNG_VACCA UNG_VACCA] Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine. Also part of a heterodimeric processivity factor which potentiates the DNA polymerase activity. Binds to DNA.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Poxvirus uracil DNA glycosylases are the most diverse members of the family I uracil DNA glycosylases (UNGs). The crystal structure of the uracil complex of Vaccinia virus uracil DNA glycosylase (D4) was determined at 2.03 A resolution. One uracil molecule was located in the active-site pocket in each of the 12 noncrystallographic symmetry-related D4 subunits. Although the UNGs of the poxviruses (including D4) feature significant differences in the characteristic motifs designated for uracil recognition and in the base-excision mechanism, the architecture of the active-site pocket in D4 is very similar to that in UNGs of other organisms. Overall, the interactions of the bound uracil with the active-site residues are also similar to the interactions previously observed in the structures of human and Escherichia coli UNG.
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==About this Structure==
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Structure of the uracil complex of Vaccinia virus uracil DNA glycosylase.,Schormann N, Banerjee S, Ricciardi R, Chattopadhyay D Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Dec;69(Pt 12):1328-34., doi: 10.1107/S1744309113030613. Epub 2013 Nov 28. PMID:24316823<ref>PMID:24316823</ref>
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[[4lzb]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LZB OCA].
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[[Category: Uracil-DNA glycosylase]]
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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[[Category: Chattopadhyay, D.]]
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</div>
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[[Category: Schormann, N.]]
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<div class="pdbe-citations 4lzb" style="background-color:#fffaf0;"></div>
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[[Category: A20]]
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[[Category: Alpha/beta dna glycosylase fold]]
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==See Also==
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[[Category: Dna binding component]]
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*[[DNA glycosylase 3D structures|DNA glycosylase 3D structures]]
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[[Category: Dna repair]]
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== References ==
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[[Category: Hydrolase]]
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<references/>
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[[Category: Viral processivity factor]]
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
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[[Category: Vaccinia virus]]
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[[Category: Chattopadhyay D]]
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[[Category: Schormann N]]

Current revision

Uracil binding pocket in Vaccinia virus uracil DNA glycosylase

PDB ID 4lzb

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