|
|
| Line 1: |
Line 1: |
| | | | |
| | ==Sigma1.1 domain of sigmaA from Bacillus subtilis== | | ==Sigma1.1 domain of sigmaA from Bacillus subtilis== |
| - | <StructureSection load='5mww' size='340' side='right' caption='[[5mww]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''> | + | <StructureSection load='5mww' size='340' side='right'caption='[[5mww]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5mww]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"vibrio_subtilis"_ehrenberg_1835 "vibrio subtilis" ehrenberg 1835]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MWW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5MWW FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5mww]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MWW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MWW FirstGlance]. <br> |
| - | </td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">sigA, A9D36_07220, AX282_18545, B4122_2417, B4122_4198, B4417_0909, SAMN05878487_2592 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 "Vibrio subtilis" Ehrenberg 1835])</td></tr> | + | </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=5mww FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mww OCA], [https://pdbe.org/5mww PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mww RCSB], [https://www.ebi.ac.uk/pdbsum/5mww PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mww 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=5mww FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mww OCA], [http://pdbe.org/5mww PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5mww RCSB], [http://www.ebi.ac.uk/pdbsum/5mww PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5mww ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/A0A063XB56_BACIU A0A063XB56_BACIU]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth.[SAAS:SAAS00535554] | + | [https://www.uniprot.org/uniprot/SIGA_BACSU SIGA_BACSU] Sigma factors are initiation factors that promote the attachment of RNA polymerase (RNAP) to specific initiation sites and are then released. This sigma factor is the primary sigma factor during all growth phases, stress and during sporulation. It associates with the RNAP core at all growth stages with a slight increase in stationary phase.<ref>PMID:21710567</ref> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
| Line 18: |
Line 17: |
| | </div> | | </div> |
| | <div class="pdbe-citations 5mww" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 5mww" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Sigma factor 3D structures|Sigma factor 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Vibrio subtilis ehrenberg 1835]] | + | [[Category: Bacillus subtilis]] |
| - | [[Category: Barvik, I]] | + | [[Category: Large Structures]] |
| - | [[Category: Krasny, L]] | + | [[Category: Barvik I]] |
| - | [[Category: Padrta, P]] | + | [[Category: Krasny L]] |
| - | [[Category: Rabatinova, A]] | + | [[Category: Padrta P]] |
| - | [[Category: Sanderova, H]] | + | [[Category: Rabatinova A]] |
| - | [[Category: Zachrdla, M]] | + | [[Category: Sanderova H]] |
| - | [[Category: Zidek, L]] | + | [[Category: Zachrdla M]] |
| - | [[Category: Autoinhibitor]]
| + | [[Category: Zidek L]] |
| - | [[Category: Transferase]]
| + | |
| Structural highlights
Function
SIGA_BACSU Sigma factors are initiation factors that promote the attachment of RNA polymerase (RNAP) to specific initiation sites and are then released. This sigma factor is the primary sigma factor during all growth phases, stress and during sporulation. It associates with the RNAP core at all growth stages with a slight increase in stationary phase.[1]
Publication Abstract from PubMed
Bacterial RNA polymerase (RNAP) requires sigma factors to recognize promoter sequences. Domain 1.1 of primary sigma factors (sigma1.1) prevents their binding to promoter DNA in the absence of RNAP, and when in complex with RNAP, it occupies the DNA-binding channel of RNAP. Currently, two 3D structures of sigma1.1 are available: from Escherichia coli in complex with RNAP and from T. maritima solved free in solution. However, these two structures significantly differ, and it is unclear whether this difference is due to an altered conformation upon RNAP binding or to differences in intrinsic properties between the proteins from these two distantly related species. Here, we report the solution structure of sigma1.1 from the Gram-positive bacterium Bacillus subtilis We found that B. subtilis sigma1.1 is highly compact because of additional stabilization not present in sigma1.1 from the other two species and that it is more similar to E. coli sigma1.1. Moreover, modeling studies suggested that B. subtilis sigma1.1 requires minimal conformational changes for accommodating RNAP in the DNA channel, whereas T. maritima sigma1.1 must be rearranged to fit therein. Thus, the mesophilic species B. subtilis and E. coli share the same sigma1.1 fold, whereas the fold of sigma1.1 from the thermophile T. maritima is distinctly different. Finally, we describe an intriguing similarity between sigma1.1 and delta, an RNAP-associated protein in B. subtilis, bearing implications for the so-far unknown binding site of delta on RNAP. In conclusion, our results shed light on the conformational changes of sigma1.1 required for its accommodation within bacterial RNAP.
Solution structure of domain 1.1 of the sigmaA factor from Bacillus subtilis is preformed for binding to the RNA polymerase core.,Zachrdla M, Padrta P, Rabatinova A, Sanderova H, Barvik I, Krasny L, Zidek L J Biol Chem. 2017 Jul 14;292(28):11610-11617. doi: 10.1074/jbc.M117.784074. Epub , 2017 May 24. PMID:28539362[2]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Delumeau O, Lecointe F, Muntel J, Guillot A, Guédon E, Monnet V, Hecker M, Becher D, Polard P, Noirot P. The dynamic protein partnership of RNA polymerase in Bacillus subtilis. Proteomics. 2011 Aug;11(15):2992-3001. PMID:21710567 doi:10.1002/pmic.201000790
- ↑ Zachrdla M, Padrta P, Rabatinova A, Sanderova H, Barvik I, Krasny L, Zidek L. Solution structure of domain 1.1 of the sigmaA factor from Bacillus subtilis is preformed for binding to the RNA polymerase core. J Biol Chem. 2017 Jul 14;292(28):11610-11617. doi: 10.1074/jbc.M117.784074. Epub , 2017 May 24. PMID:28539362 doi:http://dx.doi.org/10.1074/jbc.M117.784074
|
