1zyq

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[[Image:1zyq.gif|left|200px]]
[[Image:1zyq.gif|left|200px]]
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{{Structure
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<!--
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|PDB= 1zyq |SIZE=350|CAPTION= <scene name='initialview01'>1zyq</scene>, resolution 2.70&Aring;
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The line below this paragraph, containing "STRUCTURE_1zyq", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=8OG:8-OXO-2&#39;-DEOXY-GUANOSINE-5&#39;-MONOPHOSPHATE'>8OG</scene>, <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DAD:2&#39;,3&#39;-DIDEOXYADENOSINE-5&#39;-TRIPHOSPHATE'>DAD</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DDG:2&#39;,3&#39;-DIDEOXY-GUANOSINE-5&#39;-MONOPHOSPHATE'>DDG</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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|ACTIVITY= <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>
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or leave the SCENE parameter empty for the default display.
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|GENE= 5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10760 Enterobacteria phage T7]), trxA, fipA, tsnC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
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-->
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|DOMAIN=
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{{STRUCTURE_1zyq| PDB=1zyq | SCENE= }}
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|RELATEDENTRY=[[1t7p|1T7P]]
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1zyq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zyq OCA], [http://www.ebi.ac.uk/pdbsum/1zyq PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1zyq RCSB]</span>
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}}
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'''T7 DNA polymerase in complex with 8oG and incoming ddATP'''
'''T7 DNA polymerase in complex with 8oG and incoming ddATP'''
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[[Category: Kunkel, T A.]]
[[Category: Kunkel, T A.]]
[[Category: 8og]]
[[Category: 8og]]
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[[Category: fidelity]]
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[[Category: Fidelity]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 18:14:50 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:43:25 2008''
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Revision as of 15:14, 3 May 2008

Image:1zyq.gif

Template:STRUCTURE 1zyq

T7 DNA polymerase in complex with 8oG and incoming ddATP


Overview

8-oxo-7,8-dihydroguanosine (8oG) is a highly mutagenic DNA lesion that stably pairs with adenosine, forming 8oG(syn).dA(anti) Hoogsteen base pairs. DNA polymerases show different propensities to insert dCMP or dAMP opposite 8oG, but the molecular mechanisms that determine faithful or mutagenic bypass are poorly understood. Here, we report kinetic and structural data providing evidence that, in T7 DNA polymerase, residue Lys536 is responsible for attenuating the miscoding potential of 8oG. The Lys536Ala polymerase shows a significant increase in mutagenic 8oG bypass versus wild-type polymerase, and a crystal structure of the Lys536Ala mutant reveals a closed complex with an 8oG(syn).dATP mismatch in the polymerase active site, in contrast to the unproductive, open complex previously obtained by using wild-type polymerase. We propose that Lys536 acts as a steric and/or electrostatic filter that attenuates the miscoding potential of 8oG by normally interfering with the binding of 8oG in a syn conformation that pairs with dATP.

About this Structure

1ZYQ is a Protein complex structure of sequences from Enterobacteria phage t7 and Escherichia coli. Full crystallographic information is available from OCA.

Reference

A lysine residue in the fingers subdomain of T7 DNA polymerase modulates the miscoding potential of 8-oxo-7,8-dihydroguanosine., Brieba LG, Kokoska RJ, Bebenek K, Kunkel TA, Ellenberger T, Structure. 2005 Nov;13(11):1653-9. PMID:16271888 Page seeded by OCA on Sat May 3 18:14:50 2008

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OCA

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