6is7: Difference between revisions

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-'''Unreleased structure'''
-The entry 6is7 is ON HOLD  until Paper Publication
+==Structure of 9N-I DNA polymerase incorporation with dA in the active site==
+<StructureSection load='6is7' size='340' side='right'caption='[[6is7]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
+== 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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IS7 FirstGlance]. <br>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
+<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>
+<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=6is7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6is7 OCA], [http://pdbe.org/6is7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6is7 RCSB], [http://www.ebi.ac.uk/pdbsum/6is7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6is7 ProSAT]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+It 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.
-Authors: Linwu, S.W., Maestre-Reyna, M., Tsai, M.D., Tu, Y.H., Chang, W.H.
+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<ref>PMID:31240262</ref>
-Description: Structure of 9N-I DNA polymerase incorporation with dA in the active site
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Chang, W.H]]
+<div class="pdbe-citations 6is7" style="background-color:#fffaf0;"></div>
-[[Category: Linwu, S.W]]
+== References ==
-[[Category: Tsai, M.D]]
+<references/>
-[[Category: Tu, Y.H]]
+__TOC__
+</StructureSection>
+[[Category: DNA-directed DNA polymerase]]
+[[Category: Large Structures]]
+[[Category: Chang, W H]]
+[[Category: Linwu, S W]]
 [[Category: Maestre-Reyna, M]]
+[[Category: Tsai, M D]]
+[[Category: Tu, Y H]]
+[[Category: Transferase-dna complex]]