6is7: Difference between revisions
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<StructureSection load='6is7' size='340' side='right'caption='[[6is7]], [[Resolution|resolution]] 2.80Å' scene=''> | <StructureSection load='6is7' size='340' side='right'caption='[[6is7]], [[Resolution|resolution]] 2.80Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[6is7]] is a 9 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IS7 OCA]. For a <b>guided tour on the structure components</b> use [ | <table><tr><td colspan='2'>[[6is7]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermococcus_sp._9oN-7 Thermococcus sp. 9oN-7] 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=6IS7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IS7 FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.8Å</td></tr> | ||
<tr id=' | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6is7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6is7 OCA], [https://pdbe.org/6is7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6is7 RCSB], [https://www.ebi.ac.uk/pdbsum/6is7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6is7 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/DPOL_THES9 DPOL_THES9] | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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</div> | </div> | ||
<div class="pdbe-citations 6is7" style="background-color:#fffaf0;"></div> | <div class="pdbe-citations 6is7" style="background-color:#fffaf0;"></div> | ||
==See Also== | |||
*[[DNA polymerase 3D structures|DNA polymerase 3D structures]] | |||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Chang | [[Category: Synthetic construct]] | ||
[[Category: Linwu | [[Category: Thermococcus sp. 9oN-7]] | ||
[[Category: Maestre-Reyna | [[Category: Chang WH]] | ||
[[Category: Tsai | [[Category: Linwu SW]] | ||
[[Category: Tu | [[Category: Maestre-Reyna M]] | ||
[[Category: Tsai MD]] | |||
[[Category: Tu YH]] | |||
Latest revision as of 12:52, 22 November 2023
Structure of 9N-I DNA polymerase incorporation with dA in the active siteStructure of 9N-I DNA polymerase incorporation with dA in the active site
Structural highlights
FunctionPublication Abstract from PubMedIt was reported in 1995 that T7 and Taq DNA polymerases possess 3'-esterase activity, but without follow-up studies. Here we report that the 3'-esterase activity is intrinsic to the Thermococcus sp. 9 degrees N DNA polymerase, and that it can be developed into a continuous method for DNA sequencing with dNTP analogs carrying a 3'-ester with a fluorophore. We first show that 3'-esterified dNTP can be incorporated into a template-primer DNA, and solve the crystal structures of the reaction intermediates and products. Then we show that the reaction can occur continuously, modulated by active site residues Tyr409 and Asp542. Finally, we use 5'-FAM-labeled primer and esterified dNTP with a dye to show that the reaction can proceed to ca. 450 base pairs, and that the intermediates of many individual steps can be identified. The results demonstrate the feasibility of a 3'-editing based DNA sequencing method that could find practical applications after further optimization. Thermococcus sp. 9 degrees N DNA polymerase exhibits 3'-esterase activity that can be harnessed for DNA sequencing.,LinWu SW, Tu YH, Tsai TY, Maestre-Reyna M, Liu MS, Wu WJ, Huang JY, Chi HW, Chang WH, Chiou CF, Wang AH, Lee J, Tsai MD Commun Biol. 2019 Jun 20;2:224. doi: 10.1038/s42003-019-0458-7. eCollection 2019. PMID:31240262[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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