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6dtz

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==Crystal structure of eukaryotic DNA primase large subunit iron-sulfur cluster domain, Y397F mutant==
==Crystal structure of eukaryotic DNA primase large subunit iron-sulfur cluster domain, Y397F mutant==
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<StructureSection load='6dtz' size='340' side='right' caption='[[6dtz]], [[Resolution|resolution]] 1.36&Aring;' scene=''>
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<StructureSection load='6dtz' size='340' side='right'caption='[[6dtz]], [[Resolution|resolution]] 1.36&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[6dtz]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DTZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6DTZ FirstGlance]. <br>
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<table><tr><td colspan='2'>[[6dtz]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6DTZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6DTZ 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=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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]] 1.36&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[6di2|6di2]], [[6di6|6di6]], [[6dtv|6dtv]], [[6du0|6du0]]</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=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PRI2, YKL045W, YKL258 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</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=6dtz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dtz OCA], [https://pdbe.org/6dtz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6dtz RCSB], [https://www.ebi.ac.uk/pdbsum/6dtz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6dtz 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=6dtz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6dtz OCA], [http://pdbe.org/6dtz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6dtz RCSB], [http://www.ebi.ac.uk/pdbsum/6dtz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6dtz ProSAT]</span></td></tr>
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</table>
</table>
== Function ==
== Function ==
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[[http://www.uniprot.org/uniprot/PRI2_YEAST PRI2_YEAST]] DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki fragments made during discontinuous DNA replication. In a complex with DNA polymerase alpha (DNA polymerase alpha:primase) constitutes a replicative polymerase. Both primase components participate in formation of the active center, but the ATP-binding site is exclusively located on p48.
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[https://www.uniprot.org/uniprot/PRI2_YEAST PRI2_YEAST] DNA primase is the polymerase that synthesizes small RNA primers for the Okazaki fragments made during discontinuous DNA replication. In a complex with DNA polymerase alpha (DNA polymerase alpha:primase) constitutes a replicative polymerase. Both primase components participate in formation of the active center, but the ATP-binding site is exclusively located on p48.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Eukaryotic DNA primases contain a [4Fe4S] cluster in the C-terminal domain of the p58 subunit (p58C) that affects substrate affinity but is not required for catalysis. We show that, in yeast primase, the cluster serves as a DNA-mediated redox switch governing DNA binding, just as in human primase. Despite a different structural arrangement of tyrosines to facilitate electron transfer between the DNA substrate and [4Fe4S] cluster, in yeast, mutation of tyrosines Y395 and Y397 alters the same electron transfer chemistry and redox switch. Mutation of conserved tyrosine 395 diminishes the extent of p58C participation in normal redox-switching reactions, whereas mutation of conserved tyrosine 397 causes oxidative cluster degradation to the [3Fe4S](+) species during p58C redox signaling. Switching between oxidized and reduced states in the presence of the Y397 mutations thus puts primase [4Fe4S] cluster integrity and function at risk. Consistent with these observations, we find that yeast tolerate mutations to Y395 in p58C, but the single-residue mutation Y397L in p58C is lethal. Our data thus show that a constellation of tyrosines for protein-DNA electron transfer mediates the redox switch in eukaryotic primases and is required for primase function in vivo.
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Yeast require redox switching in DNA primase.,O'Brien E, Salay LE, Epum EA, Friedman KL, Chazin WJ, Barton JK Proc Natl Acad Sci U S A. 2018 Dec 12. pii: 1810715115. doi:, 10.1073/pnas.1810715115. PMID:30541886<ref>PMID:30541886</ref>
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==See Also==
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*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 6dtz" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Baker's yeast]]
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[[Category: Large Structures]]
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[[Category: Chazin, W J]]
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[[Category: Saccharomyces cerevisiae S288C]]
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[[Category: Salay, L E]]
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[[Category: Chazin WJ]]
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[[Category: Dna primase]]
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[[Category: Salay LE]]
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[[Category: Iron-sulfur cluster]]
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[[Category: P58]]
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[[Category: Regulatory subunit]]
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[[Category: Replication]]
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Current revision

Crystal structure of eukaryotic DNA primase large subunit iron-sulfur cluster domain, Y397F mutant

PDB ID 6dtz

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