1t94

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(New page: 200px<br /> <applet load="1t94" size="450" color="white" frame="true" align="right" spinBox="true" caption="1t94, resolution 2.40&Aring;" /> '''Crystal structure o...)
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[[Image:1t94.gif|left|200px]]<br />
 
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<applet load="1t94" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1t94, resolution 2.40&Aring;" />
 
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'''Crystal structure of the catalytic core of human DNA polymerase kappa'''<br />
 
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==Overview==
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==Crystal structure of the catalytic core of human DNA polymerase kappa==
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We present the crystal structure of the catalytic core of human DNA, polymerase kappa (hPolkappa), the first structure of a human Y-family, polymerase. hPolkappa is implicated in the proficient extension of, mispaired primer termini on undamaged DNAs, and in the extension step of, lesion bypass. The structure reveals a stubby "fingers" subdomain, which, despite its small size appears to be tightly restrained with respect to a, putative templating base. The structure also reveals a novel "thumb", subdomain that provides a basis for the importance of the N-terminal, extension unique to hPolkappa. And, most surprisingly, the structure, reveals the polymerase-associated domain (PAD) juxtaposed on the dorsal, side of the "palm" subdomain, as opposed to the fingers subdomain., Together, these properties suggest that the hPolkappa active site is, constrained at the site of the templating base and incoming nucleotide, but the polymerase is less constrained following translocation of the, lesion.
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<StructureSection load='1t94' size='340' side='right'caption='[[1t94]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1t94]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T94 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T94 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]] 2.4&#8491;</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=1t94 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t94 OCA], [https://pdbe.org/1t94 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t94 RCSB], [https://www.ebi.ac.uk/pdbsum/1t94 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t94 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/POLK_HUMAN POLK_HUMAN] DNA polymerase specifically involved in DNA repair. Plays an important role in translesion synthesis, where the normal high-fidelity DNA polymerases cannot proceed and DNA synthesis stalls. Depending on the context, it inserts the correct base, but causes frequent base transitions, transversions and frameshifts. Lacks 3'-5' proofreading exonuclease activity. Forms a Schiff base with 5'-deoxyribose phosphate at abasic sites, but does not have lyase activity.<ref>PMID:10620008</ref> <ref>PMID:11024016</ref> <ref>PMID:12145297</ref> <ref>PMID:12444249</ref> <ref>PMID:12952891</ref> <ref>PMID:14630940</ref> <ref>PMID:15533436</ref>
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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/t9/1t94_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=1t94 ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1T94 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1T94 OCA].
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*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
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== References ==
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==Reference==
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<references/>
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Crystal structure of the catalytic core of human DNA polymerase kappa., Uljon SN, Johnson RE, Edwards TA, Prakash S, Prakash L, Aggarwal AK, Structure. 2004 Aug;12(8):1395-404. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15296733 15296733]
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__TOC__
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</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Aggarwal, A.K.]]
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[[Category: Aggarwal AK]]
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[[Category: Edwards, T.A.]]
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[[Category: Edwards TA]]
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[[Category: Johnson, R.E.]]
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[[Category: Johnson RE]]
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[[Category: Prakash, L.]]
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[[Category: Prakash L]]
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[[Category: Prakash, S.]]
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[[Category: Prakash S]]
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[[Category: Uljon, S.N.]]
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[[Category: Uljon SN]]
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[[Category: replication; dna repair; y-family dna polymerase; translesion dna synthesis; lesion bypass]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 19:22:19 2007''
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Current revision

Crystal structure of the catalytic core of human DNA polymerase kappa

PDB ID 1t94

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