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1xsl

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(New page: 200px<br /> <applet load="1xsl" size="450" color="white" frame="true" align="right" spinBox="true" caption="1xsl, resolution 2.30&Aring;" /> '''Crystal Structure o...)
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[[Image:1xsl.gif|left|200px]]<br />
 
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<applet load="1xsl" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1xsl, resolution 2.30&Aring;" />
 
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'''Crystal Structure of human DNA polymerase lambda in complex with a one nucleotide DNA gap'''<br />
 
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==Overview==
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==Crystal Structure of human DNA polymerase lambda in complex with a one nucleotide DNA gap==
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Pol lambda is a family X member believed to fill short gaps during DNA, repair. Here we report crystal structures of Pol lambda representing three, steps in filling a single-nucleotide gap. These structures indicate that, unlike other DNA polymerases, Pol lambda does not undergo large subdomain, movements during catalysis, and they provide a clear characterization of, the geometry and stereochemistry of the in-line nucleotidyl transfer, reaction.
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<StructureSection load='1xsl' size='340' side='right'caption='[[1xsl]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1xsl]] is a 16 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=1XSL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XSL 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]] 2.3&#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=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></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=1xsl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xsl OCA], [https://pdbe.org/1xsl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xsl RCSB], [https://www.ebi.ac.uk/pdbsum/1xsl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xsl ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/DPOLL_HUMAN DPOLL_HUMAN] Repair polymerase. Involved in base excision repair (BER) responsible for repair of lesions that give rise to abasic (AP) sites in DNA. Has both DNA polymerase and terminal transferase activities. Has a 5'-deoxyribose-5-phosphate lyase (dRP lyase) activity.<ref>PMID:11457865</ref> <ref>PMID:15537631</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/xs/1xsl_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=1xsl 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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Pol lambda is a family X member believed to fill short gaps during DNA repair. Here we report crystal structures of Pol lambda representing three steps in filling a single-nucleotide gap. These structures indicate that, unlike other DNA polymerases, Pol lambda does not undergo large subdomain movements during catalysis, and they provide a clear characterization of the geometry and stereochemistry of the in-line nucleotidyl transfer reaction.
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==About this Structure==
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A closed conformation for the Pol lambda catalytic cycle.,Garcia-Diaz M, Bebenek K, Krahn JM, Kunkel TA, Pedersen LC Nat Struct Mol Biol. 2005 Jan;12(1):97-8. Epub 2004 Dec 19. PMID:15608652<ref>PMID:15608652</ref>
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1XSL is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with NA, MG and CAC as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [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] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1XSL OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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A closed conformation for the Pol lambda catalytic cycle., Garcia-Diaz M, Bebenek K, Krahn JM, Kunkel TA, Pedersen LC, Nat Struct Mol Biol. 2005 Jan;12(1):97-8. Epub 2004 Dec 19. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15608652 15608652]
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</div>
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[[Category: DNA-directed DNA polymerase]]
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<div class="pdbe-citations 1xsl" style="background-color:#fffaf0;"></div>
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[[Category: Homo sapiens]]
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[[Category: Single protein]]
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[[Category: Bebenek, K.]]
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[[Category: Garcia-Diaz, M.]]
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[[Category: Krahn, J.M.]]
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[[Category: Kunkel, T.A.]]
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[[Category: Pedersen, L.C.]]
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[[Category: CAC]]
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[[Category: MG]]
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[[Category: NA]]
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[[Category: dna polymerase lambda]]
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[[Category: helix-hairpin-helix]]
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[[Category: protein-dna complex]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Mon Nov 12 20:10:24 2007''
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==See Also==
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*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Homo sapiens]]
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[[Category: Large Structures]]
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[[Category: Bebenek K]]
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[[Category: Garcia-Diaz M]]
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[[Category: Krahn JM]]
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[[Category: Kunkel TA]]
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[[Category: Pedersen LC]]

Current revision

Crystal Structure of human DNA polymerase lambda in complex with a one nucleotide DNA gap

PDB ID 1xsl

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