4esv

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==A New Twist on the Translocation Mechanism of Helicases from the Structure of DnaB with its Substrates==
==A New Twist on the Translocation Mechanism of Helicases from the Structure of DnaB with its Substrates==
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<StructureSection load='4esv' size='340' side='right' caption='[[4esv]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
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<StructureSection load='4esv' size='340' side='right'caption='[[4esv]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4esv]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ESV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ESV FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4esv]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Geobacillus_stearothermophilus Geobacillus stearothermophilus] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. The December 2013 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Helicase'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2013_12 10.2210/rcsb_pdb/mom_2013_12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ESV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ESV FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.2&#8491;</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">dnaB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1422 Geobacillus stearothermophilus])</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GDP:GUANOSINE-5-DIPHOSPHATE'>GDP</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene></td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_helicase DNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.12 3.6.4.12] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4esv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4esv OCA], [https://pdbe.org/4esv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4esv RCSB], [https://www.ebi.ac.uk/pdbsum/4esv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4esv ProSAT]</span></td></tr>
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<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=4esv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4esv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4esv RCSB], [http://www.ebi.ac.uk/pdbsum/4esv PDBsum]</span></td></tr>
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</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/Q9X4C9_GEOSE Q9X4C9_GEOSE]
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DNA polymerases can only synthesize nascent DNA from single-stranded DNA (ssDNA) templates. In bacteria, the unwinding of parental duplex DNA is carried out by the replicative DNA helicase (DnaB) that couples NTP hydrolysis to 5' to 3' translocation. The crystal structure of the DnaB hexamer in complex with GDP-AlF(4) and ssDNA reported here reveals that DnaB adopts a closed spiral staircase quaternary structure around an A-form ssDNA with each C-terminal domain coordinating two nucleotides of ssDNA. The structure not only provides structural insights into the translocation mechanism of superfamily IV helicases but also suggests that members of this superfamily employ a translocation mechanism that is distinct from other helicase superfamilies. We propose a hand-over-hand mechanism in which sequential hydrolysis of NTP causes a sequential 5' to 3' movement of the subunits along the helical axis of the staircase, resulting in the unwinding of two nucleotides per subunit.
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The Hexameric Helicase DnaB Adopts a Nonplanar Conformation during Translocation.,Itsathitphaisarn O, Wing RA, Eliason WK, Wang J, Steitz TA Cell. 2012 Oct 12;151(2):267-77. doi: 10.1016/j.cell.2012.09.014. Epub 2012 Sep, 27. PMID:23022319<ref>PMID:23022319</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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==See Also==
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</div>
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*[[Helicase 3D structures|Helicase 3D structures]]
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: DNA helicase]]
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[[Category: DNA Helicase]]
[[Category: Geobacillus stearothermophilus]]
[[Category: Geobacillus stearothermophilus]]
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[[Category: Eliason, W K]]
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[[Category: Large Structures]]
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[[Category: Itsathitphaisarn, O]]
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[[Category: RCSB PDB Molecule of the Month]]
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[[Category: Steitz, T A]]
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[[Category: Synthetic construct]]
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[[Category: Wang, J]]
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[[Category: Eliason WK]]
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[[Category: Wing, R A]]
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[[Category: Itsathitphaisarn O]]
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[[Category: Helicase]]
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[[Category: Steitz TA]]
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[[Category: Hydrolase-dna complex]]
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[[Category: Wang J]]
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[[Category: Reca fold]]
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[[Category: Wing RA]]

Current revision

A New Twist on the Translocation Mechanism of Helicases from the Structure of DnaB with its Substrates

PDB ID 4esv

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