Protein Family Models

This domain makes a direct interaction with the core RNA polymerase, to form an enhancer dependent holoenzyme [1]. The centre of this domain contains a very weak similarity to a helix-turn-helix motif which may represent the other DNA binding domain. [1]. 10894718. The bacterial enhancer-dependent sigma(54) (sigma(N)) transcription factor. Buck M, Gallegos MT, Studholme DJ, Guo Y, Gralla JD;. J Bacteriol 2000;182:4129-4136. (from Pfam)

Date:

2024-10-16

This DNA binding domain is based on peptide fragmentation data. This domain is proximal to DNA in the promoter/holoenzyme complex. Furthermore this region contains a putative helix-turn-helix motif. At the C-terminus, there is a highly conserved region known as the RpoN box and is the signature of the sigma-54 proteins [1]. [1]. 10894718. The bacterial enhancer-dependent sigma(54) (sigma(N)) transcription factor. Buck M, Gallegos MT, Studholme DJ, Guo Y, Gralla JD;. J Bacteriol 2000;182:4129-4136. (from Pfam)

Date:

2024-10-16

The sigma-54 holoenzyme is an enhancer dependent form of the RNA polymerase. The AID is necessary for activator interaction [1]. In addition, the AID also inhibits transcription initiation in the sigma-54 holoenzyme prior to interaction with the activator [1]. [1]. 11544185. Binding of transcriptional activators to sigma 54 in the presence of the transition state analog ADP-aluminum fluoride: insights into activator mechanochemical action. Chaney M, Grande R, Wigneshweraraj SR, Cannon W, Casaz P, Gallegos MT, Schumacher J, Jones S, Elderkin S, Dago AE, Morett E, Buck M;. Genes Dev 2001;15:2282-2294. (from Pfam)

Date:

2024-10-16

RNA polymerase sigma-54 factor is responsible for the expression of enzymes involved in arginine catabolism; sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released

Date:

2022-08-31

Gene:

rpoN

Date:

2021-11-04

Date:

2021-08-24

A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called sigma-54, or RpoN (unrelated to sigma 70-type factors such as RpoD/SigA). RpoN is responsible for enhancer-dependent transcription, and its presence characteristically is associated with varied panels of activators, most of which are enhancer-binding proteins (but see Brahmachary, et al., PMID:15231786). RpoN may be responsible for transcription of nitrogen fixation genes, flagellins, pilins, etc., and synonyms for the gene symbol rpoN, such as ntrA, reflect these observations

Gene:

rpoN

Date:

2021-04-27

Gene:

rpoN

Date:

2021-05-13