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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