4m3y

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{{STRUCTURE_4m3y| PDB=4m3y | SCENE= }}
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==RB69 DNA polymerase ternary complex with dG/dT at position n-1 of primer/template duplex==
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===RB69 DNA polymerase ternary complex with dG/dT at position n-1 of primer/template duplex===
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<StructureSection load='4m3y' size='340' side='right' caption='[[4m3y]], [[Resolution|resolution]] 1.86&Aring;' scene=''>
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{{ABSTRACT_PUBMED_24458997}}
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== Structural highlights ==
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<table><tr><td colspan='2'>[[4m3y]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpr69 Bpr69]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M3Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4M3Y FirstGlance]. <br>
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==Function==
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4m3r|4m3r]], [[4m3t|4m3t]], [[4m3u|4m3u]], [[4m3w|4m3w]], [[4m3x|4m3x]], [[4m3z|4m3z]], [[4m41|4m41]], [[4m42|4m42]], [[4m45|4m45]]</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">43 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=12353 BPR69])</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_DNA_polymerase DNA-directed DNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.7 2.7.7.7] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4m3y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4m3y OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4m3y RCSB], [http://www.ebi.ac.uk/pdbsum/4m3y PDBsum]</span></td></tr>
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</table>
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== Function ==
[[http://www.uniprot.org/uniprot/DPOL_BPR69 DPOL_BPR69]] This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single stranded DNA in the 3'- to 5'-direction.
[[http://www.uniprot.org/uniprot/DPOL_BPR69 DPOL_BPR69]] This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single stranded DNA in the 3'- to 5'-direction.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Recent structures of DNA polymerase complexes with dGMPCPP/dT and dCTP/dA mispairs at the insertion site have shown that they adopt Watson-Crick geometry in the presence of Mn2+ indicating that the tautomeric or ionization state of the base has changed. To see whether the tautomeric or ionization state of base-pair could be affect by its microenvironment, we determined ten structures of an RB69 DNA polymerase quadruple mutant with dG/dT or dT/dG mispairs at position n-1 to n-5 of the Primer/Template duplex. Different shapes of the mispairs, including Watson-Crick geometry, have been observed, strongly suggesting that the local environment of base-pairs plays an important role in their tautomeric or ionization states.
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==About this Structure==
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Mispairs with Watson-Crick Base-pair Geometry Observed in Ternary Complexes of an RB69 DNA Polymerase Variant.,Xia S, Konigsberg WH Protein Sci. 2014 Jan 24. doi: 10.1002/pro.2434. PMID:24458997<ref>PMID:24458997</ref>
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[[4m3y]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4M3Y OCA].
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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>
==See Also==
==See Also==
*[[DNA polymerase|DNA polymerase]]
*[[DNA polymerase|DNA polymerase]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:024458997</ref><references group="xtra"/><references/>
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__TOC__
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</StructureSection>
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[[Category: Bpr69]]
[[Category: DNA-directed DNA polymerase]]
[[Category: DNA-directed DNA polymerase]]
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[[Category: Konigsberg, W H.]]
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[[Category: Konigsberg, W H]]
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[[Category: Xia, S.]]
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[[Category: Xia, S]]
[[Category: Dg/dt]]
[[Category: Dg/dt]]
[[Category: Hydrolase-dna complex]]
[[Category: Hydrolase-dna complex]]

Revision as of 22:40, 25 December 2014

RB69 DNA polymerase ternary complex with dG/dT at position n-1 of primer/template duplex

4m3y, resolution 1.86Å

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