DNA Binding Motif

Accessions: 7khc_ABF (3D-footprint 20231221)
Names: RNA polymerase sigma factor RpoD
Organisms: Escherichia coli, strain K12
Libraries: 3D-footprint 20231221 1
1 Contreras-Moreira B. 3D-footprint: a database for the structural analysis of protein-DNA complexes. Nucleic acids research 38:D91-7 (2010). [Pubmed]
Description: Escherichia coli RNA polymerase and rrnBP1 promoter closed complex
Length: 20
Consensus: annnnnnnnnnnnnCtTGTC
Weblogo:
PSSM: P0 A C G T
01 54 9 20 13 a
02 24 24 24 24 n
03 24 24 24 24 n
04 24 24 24 24 n
05 24 24 24 24 n
06 24 24 24 24 n
07 24 24 24 24 n
08 24 24 24 24 n
09 24 24 24 24 n
10 24 24 24 24 n
11 24 24 24 24 n
12 24 24 24 24 n
13 24 24 24 24 n
14 24 24 24 24 n
15 6 90 0 0 C
16 6 20 16 54 t
17 6 6 6 78 T
18 0 0 96 0 G
19 0 0 0 96 T
20 0 96 0 0 C
Binding TFs: 7khc_F (Sigma-70 region 3, Sigma-70 region 2 , Sigma-70, region 4, Sigma-70, non-essential region)
Binding Sites: 7khc_X
7khc_Y
Publications: Shin Y, Qayyum MZ, Pupov D, Esyunina D, Kulbachinskiy A, Murakami KS. Structural basis of ribosomal RNA transcription regulation. Nat Commun 12:528 (2021). [Pubmed]

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These data are available AS IS and at your own risk. The EEAD/CSIC do not give any representation or warranty nor assume any liability or responsibility for the data nor the results posted (whether as to their accuracy, completeness, quality or otherwise). Access to these data is available free of charge for ordinary use in the course of research. Downloaded data have CC-BY-NC-SA license. FootprintDB is also available at RSAT::Plants, part of the INB/ELIXIR-ES resources portfolio.