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| | <StructureSection load='3c2p' size='340' side='right'caption='[[3c2p]], [[Resolution|resolution]] 2.00Å' scene=''> | | <StructureSection load='3c2p' size='340' side='right'caption='[[3c2p]], [[Resolution|resolution]] 2.00Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3c2p]] 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=3C2P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C2P FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3c2p]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_N4 Escherichia phage N4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3C2P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3C2P FirstGlance]. <br> |
| - | </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3c3l|3c3l]], [[3c42|3c42]], [[3c46|3c46]], [[3c47|3c47]]</div></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]] 2Å</td></tr> |
| - | <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'>[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'>[https://proteopedia.org/fgij/fg.htm?mol=3c2p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2p OCA], [https://pdbe.org/3c2p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c2p RCSB], [https://www.ebi.ac.uk/pdbsum/3c2p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2p 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=3c2p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3c2p OCA], [https://pdbe.org/3c2p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3c2p RCSB], [https://www.ebi.ac.uk/pdbsum/3c2p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3c2p ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/RPOLV_BPN4 RPOLV_BPN4] DNA-dependent RNA polymerase, which is injected into the host upon infection and transcribes the phage early genes from promoters that have a 5-bp stem-3 nt loop hairpin structure.<ref>PMID:18362338</ref> <ref>PMID:19061645</ref> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Bacteriophage n4]] | + | [[Category: Escherichia phage N4]] |
| - | [[Category: DNA-directed RNA polymerase]]
| + | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Gleghorn, M L]] | + | [[Category: Gleghorn ML]] |
| - | [[Category: Murakami, K S]] | + | [[Category: Murakami KS]] |
| - | [[Category: Dna-hairpin]]
| + | |
| - | [[Category: Nucleotidyltransferase]]
| + | |
| - | [[Category: Promoter binary complex]]
| + | |
| - | [[Category: Protein-dna complex]]
| + | |
| - | [[Category: Transferase-dna complex]]
| + | |
| - | [[Category: Virion rna polymerase]]
| + | |
| Structural highlights
Function
RPOLV_BPN4 DNA-dependent RNA polymerase, which is injected into the host upon infection and transcribes the phage early genes from promoters that have a 5-bp stem-3 nt loop hairpin structure.[1] [2]
Publication Abstract from PubMed
Coliphage 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[3]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Murakami KS, Davydova EK, Rothman-Denes LB. X-ray crystal structure of the polymerase domain of the bacteriophage N4 virion RNA polymerase. Proc Natl Acad Sci U S A. 2008 Mar 24;. PMID:18362338 doi:0712325105
- ↑ Gleghorn ML, Davydova EK, Rothman-Denes LB, Murakami KS. Structural basis for DNA-hairpin promoter recognition by the bacteriophage N4 virion RNA polymerase. Mol Cell. 2008 Dec 5;32(5):707-17. PMID:19061645 doi:S1097-2765(08)00777-6
- ↑ Gleghorn ML, Davydova EK, Rothman-Denes LB, Murakami KS. Structural basis for DNA-hairpin promoter recognition by the bacteriophage N4 virion RNA polymerase. Mol Cell. 2008 Dec 5;32(5):707-17. PMID:19061645 doi:S1097-2765(08)00777-6
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