5szt

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Current revision (15:34, 6 March 2024) (edit) (undo)
 
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<StructureSection load='5szt' size='340' side='right'caption='[[5szt]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
<StructureSection load='5szt' size='340' side='right'caption='[[5szt]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[5szt]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_25104 Atcc 25104]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SZT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5SZT FirstGlance]. <br>
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<table><tr><td colspan='2'>[[5szt]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_aquaticus Thermus aquaticus] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5SZT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5SZT FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=72J:7-(N-(10-HYDROXYDECANOYL)-AMINOPENTENYL)-7-DEAZA-2-DATP'>72J</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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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]] 1.8&#8491;</td></tr>
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene></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=72J:7-(N-(10-HYDROXYDECANOYL)-AMINOPENTENYL)-7-DEAZA-2-DATP'>72J</scene>, <scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=DOC:2,3-DIDEOXYCYTIDINE-5-MONOPHOSPHATE'>DOC</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">polA, pol1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=271 ATCC 25104])</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=5szt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5szt OCA], [https://pdbe.org/5szt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5szt RCSB], [https://www.ebi.ac.uk/pdbsum/5szt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5szt ProSAT]</span></td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><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></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5szt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5szt OCA], [http://pdbe.org/5szt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5szt RCSB], [http://www.ebi.ac.uk/pdbsum/5szt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5szt ProSAT]</span></td></tr>
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</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/DPO1_THEAQ DPO1_THEAQ]
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Efficient incorporation of modified nucleotides by DNA polymerases is essential for many cutting-edge biomolecular technologies. The present study compares the acceptance of either alkene- or alkyne-modified nucleotides by KlenTaq DNA polymerase and provides structural insights into how 7-deaza-adenosine and thymidine with attached alkene-modifications are incorporated into the growing DNA strand. Thereby, we identified modified nucleotides, which prove to be superior substrates for KlenTaq DNA polymerase compared to their natural analogues. The knowledge can be used to guide future design of functionalized nucleotide building blocks.
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Structural basis for the KlenTaq DNA Polymerase catalyzed Incorporation of Alkene- versus Alkyne-modified Nucleotides.,Marx A, Hottin A, Betz K, Diederichs K Chemistry. 2016 Nov 30. doi: 10.1002/chem.201604515. PMID:27901305<ref>PMID:27901305</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 5szt" style="background-color:#fffaf0;"></div>
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==See Also==
==See Also==
*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
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== References ==
 
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<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Atcc 25104]]
 
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[[Category: DNA-directed DNA polymerase]]
 
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Betz, K]]
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[[Category: Synthetic construct]]
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[[Category: Hottin, A]]
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[[Category: Thermus aquaticus]]
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[[Category: Marx, A]]
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[[Category: Betz K]]
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[[Category: Dna polymerase]]
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[[Category: Hottin A]]
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[[Category: Klentaq]]
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[[Category: Marx A]]
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[[Category: Linker-modified nucleotide]]
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[[Category: Transferase]]
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Current revision

Crystal structure of the large fragment of DNA Polymerase I from Thermus aquaticus in a closed ternary complex with 7-(N-(10-hydroxydecanoyl)-aminopentenyl)-7-deaza-2'-dATP

PDB ID 5szt

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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