DNA Binding Motif

Accessions: 5zjq_AB (3D-footprint 20231221)
Names: Homeobox protein abdominal-B
Organisms: Drosophila melanogaster
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: Structure of AbdB/Exd complex bound to a 'Red14' DNA sequence
Length: 11
Consensus: ATGATTTATGA
Weblogo:
PSSM: P0 A C G T
01 87 0 9 0 A
02 0 0 0 96 T
03 0 0 96 0 G
04 96 0 0 0 A
05 0 0 0 96 T
06 9 0 1 86 T
07 0 9 1 86 T
08 96 0 0 0 A
09 0 0 0 96 T
10 9 9 67 11 G
11 67 11 9 9 A
Type: Heterodimer
Binding TFs: 5zjq_A (Homeobox domain)
5zjq_B (Homeobox domain, Homeobox KN domain)
Binding Sites: 5zjq_C
5zjq_D
Publications: Zeiske T, Baburajendran N, Kaczynska A, Brasch J, Palmer AG 3rd, Shapiro L, Honig B, Mann RS. Intrinsic DNA Shape Accounts for Affinity Differences between Hox-Cofactor Binding Sites. Cell Rep 24:2221-2230 (2018). [Pubmed]

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