DNA Binding Motif

Accessions: 5ipm_F (3D-footprint 20231221)
Names: RNA polymerase sigma factor RpoS
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: SigmaS-transcription initiation complex with 4-nt nascent RNA
Length: 16
Consensus: TATGCTATAATGTgtg
Weblogo:
PSSM: P0 A C G T
01 0 0 0 96 T
02 74 7 7 8 A
03 8 8 10 70 T
04 8 10 70 8 G
05 1 92 1 2 C
06 0 0 0 96 T
07 96 0 0 0 A
08 0 0 0 96 T
09 96 0 0 0 A
10 96 0 0 0 A
11 0 0 0 96 T
12 7 8 74 7 G
13 0 0 0 96 T
14 21 21 31 23 g
15 18 18 18 42 t
16 13 13 57 13 g
Binding TFs: 5ipm_F (Sigma-70 factor, region 1.2, Sigma-70 region 3, Sigma-70 region 2 , Sigma-70, region 4)
Binding Sites: 5ipm_1
5ipm_2
Publications: Liu B, Zuo Y, Steitz TA. Structures of E. coli σS-transcription initiation complexes provide new insights into polymerase mechanism : (Proc). [Pubmed]

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