DNA Binding Motif

Accessions: 5ipn_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: TATGCTATAATGTnTG
Weblogo:
PSSM: P0 A C G T
01 0 0 0 96 T
02 80 5 6 5 A
03 5 5 5 81 T
04 6 5 80 5 G
05 0 96 0 0 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 5 6 80 5 G
13 0 0 0 96 T
14 24 24 24 24 n
15 5 6 5 80 T
16 5 6 80 5 G
Binding TFs: 5ipn_F (Sigma-70 factor, region 1.2, Sigma-70 region 3, Sigma-70 region 2 , Sigma-70, region 4)
Binding Sites: 5ipn_1
5ipn_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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