5e41
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==Crystal structure of the large fragment of DNA Polymerase I from Thermus aquaticus in a closed ternary complex with 5-(N-(10-hydroxydecanoyl)-aminopentenyl)-2'-deoxyuridine-triphosphate== | ==Crystal structure of the large fragment of DNA Polymerase I from Thermus aquaticus in a closed ternary complex with 5-(N-(10-hydroxydecanoyl)-aminopentenyl)-2'-deoxyuridine-triphosphate== | ||
| - | <StructureSection load='5e41' size='340' side='right' caption='[[5e41]], [[Resolution|resolution]] 1.80Å' scene=''> | + | <StructureSection load='5e41' size='340' side='right'caption='[[5e41]], [[Resolution|resolution]] 1.80Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[5e41]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5E41 OCA]. For a <b>guided tour on the structure components</b> use [ | + | <table><tr><td colspan='2'>[[5e41]] 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=5E41 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5E41 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AUL:2-DEOXY-5-{(1E)-5-[(10-HYDROXYDECANOYL)AMINO]PENT-1-EN-1-YL}URIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>AUL</scene>, <scene name='pdbligand= | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8Å</td></tr> |
| - | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AUL:2-DEOXY-5-{(1E)-5-[(10-HYDROXYDECANOYL)AMINO]PENT-1-EN-1-YL}URIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>AUL</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> | |
| - | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5e41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5e41 OCA], [https://pdbe.org/5e41 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5e41 RCSB], [https://www.ebi.ac.uk/pdbsum/5e41 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5e41 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/DPO1_THEAQ DPO1_THEAQ] | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | 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. | ||
| + | |||
| + | 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> | ||
| + | |||
| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 5e41" style="background-color:#fffaf0;"></div> | ||
| + | |||
| + | ==See Also== | ||
| + | *[[DNA polymerase 3D structures|DNA polymerase 3D structures]] | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| - | [[Category: | + | [[Category: Large Structures]] |
| - | [[Category: | + | [[Category: Synthetic construct]] |
| - | [[Category: | + | [[Category: Thermus aquaticus]] |
| - | [[Category: | + | [[Category: Betz K]] |
| - | [[Category: | + | [[Category: Hottin A]] |
| - | [[Category: | + | [[Category: Marx A]] |
| - | + | ||
| - | + | ||
Current revision
Crystal structure of the large fragment of DNA Polymerase I from Thermus aquaticus in a closed ternary complex with 5-(N-(10-hydroxydecanoyl)-aminopentenyl)-2'-deoxyuridine-triphosphate
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