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| ==NMR structure of the RNA polymerase alpha subunit C-terminal domain from Helicobacter pylori== | | ==NMR structure of the RNA polymerase alpha subunit C-terminal domain from Helicobacter pylori== |
| <StructureSection load='2max' size='340' side='right' caption='[[2max]], [[NMR_Ensembles_of_Models | 15 NMR models]]' scene=''> | | <StructureSection load='2max' size='340' side='right'caption='[[2max]]' scene=''> |
| == Structural highlights == | | == Structural highlights == |
| <table><tr><td colspan='2'>[[2max]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Campylobacter_pylori_j99 Campylobacter pylori j99]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MAX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2MAX FirstGlance]. <br> | | <table><tr><td colspan='2'>[[2max]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori_J99 Helicobacter pylori J99]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2MAX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2MAX FirstGlance]. <br> |
| </td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">jhp_1213, rpoA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=85963 Campylobacter pylori J99])</td></tr> | | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=2max FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2max OCA], [https://pdbe.org/2max PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2max RCSB], [https://www.ebi.ac.uk/pdbsum/2max PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2max 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=2max FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2max OCA], [http://pdbe.org/2max PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2max RCSB], [http://www.ebi.ac.uk/pdbsum/2max PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2max ProSAT]</span></td></tr> | |
| </table> | | </table> |
| == Function == | | == Function == |
| [[http://www.uniprot.org/uniprot/RPOA_HELPJ RPOA_HELPJ]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates (By similarity). | | [https://www.uniprot.org/uniprot/RPOA_HELPJ RPOA_HELPJ] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates (By similarity). |
| <div style="background-color:#fffaf0;">
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| == Publication Abstract from PubMed ==
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| Bacterial RNA polymerase is a large, multi-subunit enzyme responsible for transcription of genomic information. The C-terminal domain of the alpha subunit of RNA polymerase (alphaCTD) functions as a DNA and protein recognition element localizing the polymerase on certain promoter sequences and is essential in all bacteria. Although alphaCTD is part of RNA polymerase, it is thought to have once been a separate transcription factor, and its primary role is the recruitment of RNA polymerase to various promoters. Despite the conservation of the subunits of RNA polymerase among bacteria, the mechanisms of regulation of transcription vary significantly. We have determined the tertiary structure of Helicobacter pylori alphaCTD. It is larger than other structurally determined alphaCTDs due to an extra, highly amphipathic helix near the C-terminal end. Residues within this helix are highly conserved among varepsilon-proteobacteria. The surface of the domain that binds A/T rich DNA sequences is conserved and showed binding to DNA similar to alphaCTDs of other bacteria. Using several NikR dependent promoter sequences, we observed cooperative binding of H. pylori alphaCTD to NikR:DNA complexes. We also produced alphaCTD lacking the 19 C-terminal residues, which showed greatly decreased stability, but maintained the core domain structure and binding affinity to NikR:DNA at low temperatures. The modeling of H. pylori alphaCTD into the context of transcriptional complexes suggests that the additional amphipathic helix mediates interactions with transcriptional regulators.
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| Helicobacter pylori RNA polymerase alpha-subunit C-terminal domain shows features unique to varepsilon-proteobacteria and binds NikR/DNA complexes.,Borin BN, Tang W, Krezel AM Protein Sci. 2014 Jan 17. doi: 10.1002/pro.2427. PMID:24442709<ref>PMID:24442709</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 2max" style="background-color:#fffaf0;"></div>
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| == References ==
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| <references/>
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| __TOC__ | | __TOC__ |
| </StructureSection> | | </StructureSection> |
| [[Category: Campylobacter pylori j99]] | | [[Category: Helicobacter pylori J99]] |
| [[Category: DNA-directed RNA polymerase]] | | [[Category: Large Structures]] |
| [[Category: Borin, B N]] | | [[Category: Borin BN]] |
| [[Category: Krezel, A M]] | | [[Category: Krezel AM]] |
| [[Category: Dna-directed rna polymerase]]
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| [[Category: Hp1293]]
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| [[Category: Jhp1213]]
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| [[Category: Nucleotidyltransferase]]
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| [[Category: Rna polymerase alpha subunit]]
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| [[Category: Rpoa]]
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| [[Category: Transcription]]
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| [[Category: Transferase]]
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