Faculty Opinions recommendation of Structural organization of bacterial RNA polymerase holoenzyme and the RNA polymerase-promoter open complex.

2002 ◽  
Author(s):  
Robert Dutnall
Keyword(s):  
Rna Polymerase ◽  
Structural Organization ◽  
Bacterial Rna ◽  
Rna Polymerase Holoenzyme ◽  
Rna Polymerase Promoter

scholarly journals Structural Organization of Bacterial RNA Polymerase Holoenzyme and the RNA Polymerase-Promoter Open Complex

Cell ◽  
2002 ◽  
Vol 108 (5) ◽  
pp. 599-614 ◽  
Author(s):  
Vladimir Mekler ◽  
Ekaterine Kortkhonjia ◽  
Jayanta Mukhopadhyay ◽  
Jennifer Knight ◽  
Andrei Revyakin ◽  
...  
Keyword(s):  
Rna Polymerase ◽  
Structural Organization ◽  
Bacterial Rna ◽  
Rna Polymerase Holoenzyme ◽  
Rna Polymerase Promoter

scholarly journals Regulation of Gene Expression of phiEco32-like Bacteriophage 7-11

2022 ◽  
Author(s):  
Daria Lavysh ◽  
Vladimir Mekler ◽  
Evgeny Klimuk ◽  
Konstantin Severinov
Keyword(s):  
Gene Expression ◽  
Rna Polymerase ◽  
Regulation Of Gene Expression ◽  
In Vitro Transcription ◽  
Single Element ◽  
Bacterial Rna ◽  
Sigma 70 ◽  
Rna Polymerase Holoenzyme ◽  
Rna Polymerase Promoter

Salmonella enterica serovar Newport bacteriophage 7-11 shares 41 homologous ORFs with Escherichia coli phage phiEco32 and both phages encode a protein similar to bacterial RNA polymerase promoter specificity  subunit. Here, we investigated the temporal pattern of 7-11 gene expression during the infection and compared it to the previously determined transcription strategy of phiEco32. Using primer extension and in vitro transcription assays we identified eight promoters recognized by host RNA polymerase holoenzyme containing 7-11  subunit SaPh711_gp47. These promoters are characterized by a bipartite consensus GTAAtg-(16)-aCTA and are located upstream of late phage genes. While dissimilar from single-element middle and late promoters of phiEco32 recognized by holoenzyme formed by the phi32_gp36  factor, the 7-11 late promoters are located at genome positions similar to those of phiEco32 middle and late promoters. Two early 7-11 promoters are recognized by RNA polymerase holoenzyme containing host primary σ70 factor. Unlike the case of phiEco32, no shut off of σ70-dependent transcription is observed during 7-11 infection and there are no middle promoters. These differences can be explained by the fact that phage 7-11 does not encode a homologue of phi32_gp79, an inhibitor of host and early phage transcription and an activator of transcription by the phi32_gp36-holoenzyme.

scholarly journals Utilization of variably spaced promoter-like elements by the bacterial RNA polymerase holoenzyme during early elongation

2010 ◽  
Vol 75 (3) ◽  
pp. 607-622 ◽  
Author(s):  
Pukhrambam Grihanjali Devi ◽  
Elizabeth A. Campbell ◽  
Seth A. Darst ◽  
Bryce E. Nickels
Keyword(s):  
Rna Polymerase ◽  
Bacterial Rna ◽  
Rna Polymerase Holoenzyme

Investigations of the modular structure of bacterial promoters

2006 ◽  
Vol 73 ◽  
pp. 1-10 ◽  
Author(s):  
Nora S. Miroslavova ◽  
Stephen J.W. Busby
Keyword(s):  
Rna Polymerase ◽  
Dna Sequence ◽  
Transcription Initiation ◽  
Promoter Activity ◽  
Modular Structure ◽  
Bacterial Rna ◽  
Sequence Elements ◽  
Promoter Dna ◽  
Transcript Initiation ◽  
Rna Polymerase Holoenzyme

Bacterial RNA polymerase holoenzyme carries different determinants that contact different promoter DNA sequence elements. These contacts are essential for the recognition of promoters prior to transcript initiation. Here, we have investigated how active promoters can be built from different combinations of elements. Our results show that the contribution of different contacts to promoter activity is critically dependent on the overall promoter context, and that certain combinations of contacts can hinder transcription initiation.

scholarly journals Recognition of Streptococcal Promoters by the Pneumococcal SigA Protein

2021 ◽  
Vol 8 ◽  
Author(s):  
Virtu Solano-Collado ◽  
Sofía Ruiz-Cruz ◽  
Fabián Lorenzo-Díaz ◽  
Radoslaw Pluta ◽  
Manuel Espinosa ◽  
...  
Keyword(s):  
Rna Polymerase ◽  
Sigma Factor ◽  
Regulation Of Gene Expression ◽  
E Coli ◽  
Core Enzyme ◽  
Protein Architecture ◽  
Bacterial Rna ◽  
Promoter Recognition ◽  
Rna Polymerase Holoenzyme

Promoter recognition by RNA polymerase is a key step in the regulation of gene expression. The bacterial RNA polymerase core enzyme is a complex of five subunits that interacts transitory with one of a set of sigma factors forming the RNA polymerase holoenzyme. The sigma factor confers promoter specificity to the RNA polymerase. In the Gram-positive pathogenic bacterium Streptococcus pneumoniae, most promoters are likely recognized by SigA, a poorly studied housekeeping sigma factor. Here we present a sequence conservation analysis and show that SigA has similar protein architecture to Escherichia coli and Bacillus subtilis homologs, namely the poorly conserved N-terminal 100 residues and well-conserved rest of the protein (domains 2, 3, and 4). Further, we have purified the native (untagged) SigA protein encoded by the pneumococcal R6 strain and reconstituted an RNA polymerase holoenzyme composed of the E. coli core enzyme and the sigma factor SigA (RNAP-SigA). By in vitro transcription, we have found that RNAP-SigA was able to recognize particular promoters, not only from the pneumococcal chromosome but also from the S. agalactiae promiscuous antibiotic-resistance plasmid pMV158. Specifically, SigA was able to direct the RNA polymerase to transcribe genes involved in replication and conjugative mobilization of plasmid pMV158. Our results point to the versatility of SigA in promoter recognition and its contribution to the promiscuity of plasmid pMV158.

scholarly journals Structure of the Bacterial RNA Polymerase Promoter Specificity σ Subunit

2002 ◽  
Vol 9 (3) ◽  
pp. 527-539 ◽  
Author(s):  
Elizabeth A. Campbell ◽  
Oriana Muzzin ◽  
Mark Chlenov ◽  
Jing L. Sun ◽  
C.Anders Olson ◽  
...  
Keyword(s):  
Rna Polymerase ◽  
Bacterial Rna ◽  
Promoter Specificity ◽  
Rna Polymerase Promoter

scholarly journals Crystal structure of a bacterial RNA polymerase holoenzyme at 2.6 Å resolution

2002 ◽  
Vol 58 (s1) ◽  
pp. c5-c5
Author(s):  
D. G. Vassylyev ◽  
S. Sekine ◽  
O. Laptenko ◽  
J. Lee ◽  
M. N. Vassylyeva ◽  
...  
Keyword(s):  
Crystal Structure ◽  
Rna Polymerase ◽  
Bacterial Rna ◽  
Rna Polymerase Holoenzyme

scholarly journals Author response: Structure of a bacterial RNA polymerase holoenzyme open promoter complex

2015 ◽  
Author(s):  
Brian Bae ◽  
Andrey Feklistov ◽  
Agnieszka Lass-Napiorkowska ◽  
Robert Landick ◽  
Seth A Darst
Keyword(s):  
Rna Polymerase ◽  
Author Response ◽  
Bacterial Rna ◽  
Promoter Complex ◽  
Rna Polymerase Holoenzyme

scholarly journals Structural Basis of Transcription Initiation by Bacterial RNA Polymerase Holoenzyme

2014 ◽  
Vol 289 (35) ◽  
pp. 24549-24559 ◽  
Author(s):  
Ritwika S. Basu ◽  
Brittany A. Warner ◽  
Vadim Molodtsov ◽  
Danil Pupov ◽  
Daria Esyunina ◽  
...  
Keyword(s):  
Rna Polymerase ◽  
Transcription Initiation ◽  
Structural Basis ◽  
Bacterial Rna ◽  
Rna Polymerase Holoenzyme
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