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==Ternary complex of 9N DNA polymerase in the replicative state with two metal ions in the active site== | ==Ternary complex of 9N DNA polymerase in the replicative state with two metal ions in the active site== | ||
<StructureSection load='5omv' size='340' side='right' caption='[[5omv]], [[Resolution|resolution]] 2.00Å' scene=''> | <StructureSection load='5omv' size='340' side='right'caption='[[5omv]], [[Resolution|resolution]] 2.00Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[5omv]] is a 3 chain structure with sequence from [ | <table><tr><td colspan='2'>[[5omv]] is a 3 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=5OMV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5OMV FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DTP:2-DEOXYADENOSINE+5-TRIPHOSPHATE'>DTP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.003Å</td></tr> | ||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DTP:2-DEOXYADENOSINE+5-TRIPHOSPHATE'>DTP</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene></td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5omv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5omv OCA], [https://pdbe.org/5omv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5omv RCSB], [https://www.ebi.ac.uk/pdbsum/5omv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5omv ProSAT]</span></td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | |||
</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 == | ||
| Line 20: | Line 21: | ||
==See Also== | ==See Also== | ||
*[[DNA polymerase|DNA polymerase]] | *[[DNA polymerase 3D structures|DNA polymerase 3D structures]] | ||
== References == | == References == | ||
<references/> | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Large Structures]] | ||
[[Category: | [[Category: Synthetic construct]] | ||
[[Category: | [[Category: Thermococcus sp. 9oN-7]] | ||
[[Category: | [[Category: Betz K]] | ||
[[Category: | [[Category: Diederichs K]] | ||
[[Category: | [[Category: Marx A]] | ||
Latest revision as of 19:55, 13 December 2023
Ternary complex of 9N DNA polymerase in the replicative state with two metal ions in the active siteTernary complex of 9N DNA polymerase in the replicative state with two metal ions in the active site
Structural highlights
FunctionPublication Abstract from PubMedArchaeal B-family polymerases drive biotechnology by accepting a wide substrate range of chemically modified nucleotides. By now no structural data for archaeal B-family DNA polymerases in a closed, ternary complex are available, which would be the basis for developing next generation nucleotides. We present the ternary crystal structures of KOD and 9 degrees N DNA polymerases complexed with DNA and the incoming dATP. The structures reveal a third metal ion in the active site, which was so far only observed for the eukaryotic B-family DNA polymerase delta and no other B-family DNA polymerase. The structures reveal a wide inner channel and numerous interactions with the template strand that provide space for modifications within the enzyme and may account for the high processivity, respectively. The crystal structures provide insights into the superiority over other DNA polymerases concerning the acceptance of modified nucleotides. Crystal structures of ternary complexes of archaeal B-family DNA polymerases.,Kropp HM, Betz K, Wirth J, Diederichs K, Marx A PLoS One. 2017 Dec 6;12(12):e0188005. doi: 10.1371/journal.pone.0188005., eCollection 2017. PMID:29211756[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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