1wn7

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{{Seed}}
 
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[[Image:1wn7.png|left|200px]]
 
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==Crystal structure of archaeal family B DNA polymerase mutant==
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The line below this paragraph, containing "STRUCTURE_1wn7", creates the "Structure Box" on the page.
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<StructureSection load='1wn7' size='340' side='right'caption='[[1wn7]], [[Resolution|resolution]] 2.75&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'>[[1wn7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_kodakarensis_KOD1 Thermococcus kodakarensis KOD1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WN7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1WN7 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]] 2.75&#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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
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{{STRUCTURE_1wn7| PDB=1wn7 | 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=1wn7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1wn7 OCA], [https://pdbe.org/1wn7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1wn7 RCSB], [https://www.ebi.ac.uk/pdbsum/1wn7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1wn7 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/D0VWU9_THEKO D0VWU9_THEKO]
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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/wn/1wn7_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1wn7 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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A novel mechanism for controlling the proofreading and polymerase activities of archaeal DNA polymerases was studied. The 3'-5'exonuclease (proofreading) activity and PCR performance of the family B DNA polymerase from Thermococcus kodakaraensis KOD1 (previously Pyrococcus kodakaraensis KOD1) were altered efficiently by mutation of a "unique loop" in the exonuclease domain. Interestingly, eight different H147 mutants showed considerable variations in respect to their 3'-5'exonuclease activity, from 9% to 276%, as against that of the wild-type (WT) enzyme. We determined the 2.75A crystal structure of the H147E mutant of KOD DNA polymerase that shows 30% of the 3'-5'exonuclease activity, excellent PCR performance and WT-like fidelity. The structural data indicate that the properties of the H147E mutant were altered by a conformational change of the Editing-cleft caused by an interaction between the unique loop and the Thumb domain. Our data suggest that electrostatic and hydrophobic interactions between the unique loop of the exonuclease domain and the tip of the Thumb domain are essential for determining the properties of these DNA polymerases.
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===Crystal structure of archaeal family B DNA polymerase mutant===
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Structural mechanism for coordination of proofreading and polymerase activities in archaeal DNA polymerases.,Kuroita T, Matsumura H, Yokota N, Kitabayashi M, Hashimoto H, Inoue T, Imanaka T, Kai Y J Mol Biol. 2005 Aug 12;351(2):291-8. PMID:16019029<ref>PMID:16019029</ref>
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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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<div class="pdbe-citations 1wn7" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_16019029}}, adds the Publication Abstract to the page
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*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 16019029 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_16019029}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1WN7 OCA].
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[[Category: Thermococcus kodakarensis KOD1]]
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[[Category: Hashimoto H]]
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==Reference==
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[[Category: Imanaka T]]
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Structural mechanism for coordination of proofreading and polymerase activities in archaeal DNA polymerases., Kuroita T, Matsumura H, Yokota N, Kitabayashi M, Hashimoto H, Inoue T, Imanaka T, Kai Y, J Mol Biol. 2005 Aug 12;351(2):291-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16019029 16019029]
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[[Category: Inoue T]]
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[[Category: Kai Y]]
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Crystal structure of DNA polymerase from hyperthermophilic archaeon Pyrococcus kodakaraensis KOD1., Hashimoto H, Nishioka M, Fujiwara S, Takagi M, Imanaka T, Inoue T, Kai Y, J Mol Biol. 2001 Feb 23;306(3):469-77. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11178906 11178906]
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[[Category: Kuroita T]]
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[[Category: DNA-directed DNA polymerase]]
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[[Category: Matsumura H]]
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[[Category: Hashimoto, H.]]
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[[Category: Yokota N]]
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[[Category: Imanaka, T.]]
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[[Category: Inoue, T.]]
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[[Category: Kai, Y.]]
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[[Category: Kuroita, T.]]
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[[Category: Matsumura, H.]]
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[[Category: Yokota, N.]]
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[[Category: Transferase]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 16:22:06 2008''
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Current revision

Crystal structure of archaeal family B DNA polymerase mutant

PDB ID 1wn7

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OCA

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