1x9m

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[[Image:1x9m.gif|left|200px]]
 
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==T7 DNA polymerase in complex with an N-2-acetylaminofluorene-adducted DNA==
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The line below this paragraph, containing "STRUCTURE_1x9m", creates the "Structure Box" on the page.
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<StructureSection load='1x9m' size='340' side='right'caption='[[1x9m]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1x9m]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Escherichia_phage_T7 Escherichia phage T7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1X9M OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1X9M FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 2.1&#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=2DT:3-DEOXYTHYMIDINE-5-MONOPHOSPHATE'>2DT</scene>, <scene name='pdbligand=8FG:N-(5-PHOSPHO-2-DEOXYGUANOSIN-8-YL)-2-ACETYLAMINOFLUORENE'>8FG</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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{{STRUCTURE_1x9m| PDB=1x9m | SCENE= }}
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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=1x9m FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1x9m OCA], [https://pdbe.org/1x9m PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1x9m RCSB], [https://www.ebi.ac.uk/pdbsum/1x9m PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1x9m ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/THIO_ECOLI THIO_ECOLI] Participates in various redox reactions through the reversible oxidation of its active center dithiol to a disulfide and catalyzes dithiol-disulfide exchange reactions.
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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/x9/1x9m_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=1x9m ConSurf].
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<div style="clear:both"></div>
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'''T7 DNA polymerase in complex with an N-2-acetylaminofluorene-adducted DNA'''
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==See Also==
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*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
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*[[Thioredoxin 3D structures|Thioredoxin 3D structures]]
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==Overview==
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__TOC__
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The carcinogen 2-acetylaminofluorene forms two major DNA adducts: N-(2'-deoxyguanosin-8-yl)-2-acetylaminofluorene (dG-AAF) and its deacetylated derivative, N-(2'-deoxyguanosin-8-yl)-2-aminofluorene (dG-AF). Although the dG-AAF and dG-AF adducts are distinguished only by the presence or absence of an acetyl group, they have profoundly different effects on DNA replication. dG-AAF poses a strong block to DNA synthesis and primarily induces frameshift mutations in bacteria, resulting in the loss of one or two nucleotides during replication past the lesion. dG-AF is less toxic and more easily bypassed by DNA polymerases, albeit with an increased frequency of misincorporation opposite the lesion, primarily resulting in G --&gt; T transversions. We present three crystal structures of bacteriophage T7 DNA polymerase replication complexes, one with dG-AAF in the templating position and two others with dG-AF in the templating position. Our crystallographic data suggest why a dG-AAF adduct blocks replication more strongly than does a dG-AF adduct and provide a possible explanation for frameshift mutagenesis during replication bypass of a dG-AAF adduct. The dG-AAF nucleoside adopts a syn conformation that facilitates the intercalation of its fluorene ring into a hydrophobic pocket on the surface of the fingers subdomain and locks the fingers in an open, inactive conformation. In contrast, the dG-AF base at the templating position is not well defined by the electron density, consistent with weak binding to the polymerase and a possible interchange of this adduct between the syn and anti conformations.
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</StructureSection>
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==About this Structure==
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1X9M is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t7 Enterobacteria phage t7] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1X9M OCA].
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==Reference==
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Crystal structures of 2-acetylaminofluorene and 2-aminofluorene in complex with T7 DNA polymerase reveal mechanisms of mutagenesis., Dutta S, Li Y, Johnson D, Dzantiev L, Richardson CC, Romano LJ, Ellenberger T, Proc Natl Acad Sci U S A. 2004 Nov 16;101(46):16186-91. Epub 2004 Nov 4. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15528277 15528277]
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[[Category: DNA-directed DNA polymerase]]
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[[Category: Enterobacteria phage t7]]
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[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
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[[Category: Protein complex]]
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[[Category: Escherichia phage T7]]
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[[Category: Dutta, S.]]
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[[Category: Large Structures]]
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[[Category: Dzantiev, L.]]
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[[Category: Dutta S]]
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[[Category: Ellenberger, T.]]
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[[Category: Dzantiev L]]
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[[Category: Johnson, D.]]
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[[Category: Ellenberger T]]
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[[Category: Li, Y.]]
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[[Category: Johnson D]]
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[[Category: Richardson, C C.]]
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[[Category: Li Y]]
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[[Category: Romano, L J.]]
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[[Category: Richardson CC]]
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[[Category: Dna ploymerase]]
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[[Category: Romano LJ]]
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[[Category: Mutagenesis]]
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[[Category: N-2-acetylaminofluorene]]
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[[Category: Replication block]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 14:44:59 2008''
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Current revision

T7 DNA polymerase in complex with an N-2-acetylaminofluorene-adducted DNA

PDB ID 1x9m

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