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| ==X-ray crystal structure of polymerase domain of the bacteriophage N4 virion RNA polymerase== | | ==X-ray crystal structure of polymerase domain of the bacteriophage N4 virion RNA polymerase== |
| <StructureSection load='2po4' size='340' side='right' caption='[[2po4]], [[Resolution|resolution]] 2.00Å' scene=''> | | <StructureSection load='2po4' size='340' side='right'caption='[[2po4]], [[Resolution|resolution]] 2.00Å' scene=''> |
| == Structural highlights == | | == Structural highlights == |
| <table><tr><td colspan='2'>[[2po4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpn4 Bpn4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PO4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2PO4 FirstGlance]. <br> | | <table><tr><td colspan='2'>[[2po4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_N4 Escherichia virus N4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PO4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PO4 FirstGlance]. <br> |
| </td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">gp50 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10752 BPN4])</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='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://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=2po4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2po4 OCA], [https://pdbe.org/2po4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2po4 RCSB], [https://www.ebi.ac.uk/pdbsum/2po4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2po4 ProSAT]</span></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=2po4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2po4 OCA], [http://pdbe.org/2po4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2po4 RCSB], [http://www.ebi.ac.uk/pdbsum/2po4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2po4 ProSAT]</span></td></tr> | |
| </table> | | </table> |
| <div style="background-color:#fffaf0;">
| | == Function == |
| == Publication Abstract from PubMed == | | [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> |
| Coliphage N4 virion RNA polymerase (vRNAP), which is injected into the host upon infection, transcribes the phage early genes from promoters that have a 5-bp stem-3 nt loop hairpin structure. Here, we describe the 2.0-A resolution x-ray crystal structure of N4 mini-vRNAP, a member of the T7-like, single-unit RNAP family and the minimal component having all RNAP functions of the full-length vRNAP. The structure resembles a "fisted right hand" with Fingers, Palm and Thumb subdomains connected to an N-terminal domain. We established that the specificity loop extending from the Fingers along with W129 of the N-terminal domain play critical roles in hairpin-promoter recognition. A comparison with the structure of the T7 RNAP initiation complex reveals that the pathway of the DNA to the active site is blocked in the apo-form vRNAP, indicating that vRNAP must undergo a large-scale conformational change upon promoter DNA binding and explaining the highly restricted promoter specificity of vRNAP that is essential for phage early transcription.
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| X-ray crystal structure of the polymerase domain of the bacteriophage N4 virion RNA polymerase.,Murakami KS, Davydova EK, Rothman-Denes LB Proc Natl Acad Sci U S A. 2008 Mar 24;. PMID:18362338<ref>PMID:18362338</ref>
| | ==See Also== |
| | | *[[RNA polymerase 3D structures|RNA polymerase 3D structures]] |
| From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
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| </div>
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| <div class="pdbe-citations 2po4" style="background-color:#fffaf0;"></div>
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| == References == | | == References == |
| <references/> | | <references/> |
| __TOC__ | | __TOC__ |
| </StructureSection> | | </StructureSection> |
| [[Category: Bpn4]] | | [[Category: Escherichia virus N4]] |
| [[Category: DNA-directed RNA polymerase]] | | [[Category: Large Structures]] |
| [[Category: Davydova, E K]] | | [[Category: Davydova EK]] |
| [[Category: Murakami, K S]] | | [[Category: Murakami KS]] |
| [[Category: Rothman-Denes, L B]] | | [[Category: Rothman-Denes LB]] |
| [[Category: Right hand shape]]
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| [[Category: Transferase]]
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