6dsu: Difference between revisions

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 ==Bst DNA polymerase I pre-insertion complex structure==
-<StructureSection load='6dsu' size='340' side='right' caption='[[6dsu]], [[Resolution|resolution]] 1.98&Aring;' scene=''>
+<StructureSection load='6dsu' size='340' side='right'caption='[[6dsu]], [[Resolution|resolution]] 1.98&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6dsu]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DSU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DSU FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6dsu]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus] 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=6DSU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DSU FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DZ4:2-DEOXY-5-O-[(R)-HYDROXY{[(R)-HYDROXY(PHOSPHONOOXY)PHOSPHORYL]AMINO}PHOSPHORYL]ADENOSINE'>DZ4</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.98&#8491;</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='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DZ4:2-DEOXY-5-O-[(R)-HYDROXY{[(R)-HYDROXY(PHOSPHONOOXY)PHOSPHORYL]AMINO}PHOSPHORYL]ADENOSINE'>DZ4</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=6dsu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dsu OCA], [http://pdbe.org/6dsu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dsu RCSB], [http://www.ebi.ac.uk/pdbsum/6dsu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dsu ProSAT]</span></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=6dsu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dsu OCA], [https://pdbe.org/6dsu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6dsu RCSB], [https://www.ebi.ac.uk/pdbsum/6dsu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6dsu ProSAT]</span></td></tr>
 </table>
-<div style="background-color:#fffaf0;">
+== Function ==
-== Publication Abstract from PubMed ==
+[https://www.uniprot.org/uniprot/E1C9K5_GEOSE E1C9K5_GEOSE]
-High resolution crystal structures of DNA polymerase intermediates are needed to study the mechanism of DNA synthesis in cells. Here we report five crystal structures of DNA polymerase I that capture new conformations for the polymerase translocation and nucleotide pre-insertion steps in the DNA synthesis pathway. We suggest that these new structures, along with previously solved structures, highlight the dynamic nature of the finger subdomain in the enzyme active site.
-Crystal structures of DNA polymerase I capture novel intermediates in the DNA synthesis pathway.,Chim N, Jackson LN, Trinh AM, Chaput JC Elife. 2018 Oct 19;7. pii: 40444. doi: 10.7554/eLife.40444. PMID:30338759<ref>PMID:30338759</ref>
+==See Also==
+*[[DNA polymerase 3D structures|DNA polymerase 3D structures]]
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 6dsu" style="background-color:#fffaf0;"></div>
-== References ==
-<references/>
 __TOC__
 </StructureSection>
-[[Category: DNA-directed DNA polymerase]]
+[[Category: Geobacillus stearothermophilus]]
-[[Category: Chaput, J C]]
+[[Category: Large Structures]]
-[[Category: Chim, N]]
+[[Category: Synthetic construct]]
-[[Category: Jackson, L N]]
+[[Category: Chaput JC]]
-[[Category: Dna synthesis]]
+[[Category: Chim N]]
-[[Category: Transferase]]
+[[Category: Jackson LN]]
-[[Category: Transferase-dna complex]]