DNA Binding Motif

Accessions: 6jbq_F (3D-footprint 20210203)
Names: ECF RNA polymerase sigma-E factor
Organisms: Escherichia coli, strain K12
Libraries: 3D-footprint 20210203 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: CryoEM structure of Escherichia coli sigmaE transcription initiation complex containing 5nt of RNA
Length: 31
Consensus: CGGAACTnnnnnnnnnnnnnAnTGTCnnAnC
Weblogo:
PSSM: P0 A C G T
01 0 96 0 0 C
02 7 4 81 4 G
03 4 4 84 4 G
04 96 0 0 0 A
05 96 0 0 0 A
06 0 92 0 4 C
07 4 4 7 81 T
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 24 24 24 24 n
16 24 24 24 24 n
17 24 24 24 24 n
18 24 24 24 24 n
19 24 24 24 24 n
20 24 24 24 24 n
21 81 4 4 7 A
22 24 24 24 24 n
23 4 4 7 81 T
24 0 0 96 0 G
25 0 0 0 96 T
26 0 96 0 0 C
27 24 24 24 24 n
28 24 24 24 24 n
29 96 0 0 0 A
30 24 24 24 24 n
31 4 84 4 4 C
Binding TFs: 6jbq_F (ECF sigma factor, Sigma-70 region 2 , Sigma-70, region 4, Sigma-70, region 4)
Binding Sites: 6jbq_G
6jbq_H
Publications: Fang C, Li L, Shen L, Shi J, Wang S, Feng Y, Zhang Y. Structures and mechanism of transcription initiation by bacterial ECF factors. Nucleic Acids Res 47:7094-7104 (2019). [Pubmed]

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