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==X-ray crystal structure of the N4 mini-vRNAP P2_7a promoter complex soaked with MgCl2== | ==X-ray crystal structure of the N4 mini-vRNAP P2_7a promoter complex soaked with MgCl2== | ||
<StructureSection load='3c46' size='340' side='right' caption='[[3c46]], [[Resolution|resolution]] 2.00Å' scene=''> | <StructureSection load='3c46' size='340' side='right'caption='[[3c46]], [[Resolution|resolution]] 2.00Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3c46]] is a 4 chain structure with sequence from [ | <table><tr><td colspan='2'>[[3c46]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteriophage_n4 Bacteriophage n4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C46 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C46 FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=2HP:DIHYDROGENPHOSPHATE+ION'>2HP</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=2HP:DIHYDROGENPHOSPHATE+ION'>2HP</scene></td></tr> | ||
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3c2p|3c2p]], [[3c3l|3c3l]], [[3c42|3c42]], [[3c47|3c47]]</td></tr> | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3c2p|3c2p]], [[3c3l|3c3l]], [[3c42|3c42]], [[3c47|3c47]]</div></td></tr> | ||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">vRNAP ([ | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">vRNAP ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10752 Bacteriophage N4])</td></tr> | ||
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </span></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3c46 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c46 OCA], [https://pdbe.org/3c46 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c46 RCSB], [https://www.ebi.ac.uk/pdbsum/3c46 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c46 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
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</div> | </div> | ||
<div class="pdbe-citations 3c46" style="background-color:#fffaf0;"></div> | <div class="pdbe-citations 3c46" style="background-color:#fffaf0;"></div> | ||
==See Also== | |||
*[[RNA polymerase 3D structures|RNA polymerase 3D structures]] | |||
== References == | == References == | ||
<references/> | <references/> | ||
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[[Category: Bacteriophage n4]] | [[Category: Bacteriophage n4]] | ||
[[Category: DNA-directed RNA polymerase]] | [[Category: DNA-directed RNA polymerase]] | ||
[[Category: Large Structures]] | |||
[[Category: Gleghorn, M L]] | [[Category: Gleghorn, M L]] | ||
[[Category: Murakami, K S]] | [[Category: Murakami, K S]] | ||
Revision as of 10:42, 27 January 2022
X-ray crystal structure of the N4 mini-vRNAP P2_7a promoter complex soaked with MgCl2X-ray crystal structure of the N4 mini-vRNAP P2_7a promoter complex soaked with MgCl2
Structural highlights
Publication Abstract from PubMedColiphage N4 virion-encapsidated RNA polymerase (vRNAP) is a member of the phage T7-like single-subunit RNA polymerase (RNAP) family. Its central domain (mini-vRNAP) contains all RNAP functions of the full-length vRNAP, which recognizes a 5 to 7 base pair stem and 3 nucleotide loop hairpin DNA promoter. Here, we report the X-ray crystal structures of mini-vRNAP bound to promoters. Mini-vRNAP uses four structural motifs to recognize DNA sequences at the hairpin loop and stem and to unwind DNA. Despite their low sequence similarity, three out of four motifs are shared with T7 RNAP that recognizes a double-stranded DNA promoter. The binary complex structure and results of engineered disulfide linkage experiments reveal that the plug and motif B loop, which block the access of template DNA to the active site in the apo-form mini-vRNAP, undergo a large-scale conformational change upon promoter binding, explaining the restricted promoter specificity that is critical for N4 phage early transcription. Structural basis for DNA-hairpin promoter recognition by the bacteriophage N4 virion RNA polymerase.,Gleghorn ML, Davydova EK, Rothman-Denes LB, Murakami KS Mol Cell. 2008 Dec 5;32(5):707-17. PMID:19061645[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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