interface graph thumbnail
legend  pdf

structure nameSOLUTION NMR STRUCTURE OF THE GAGA FACTOR/DNA COMPLEX, 50 STRUCTURES
(GAGA-FACTOR)
sourceDROSOPHILA MELANOGASTER
experimentNMR
structural superfamilyC2H2 and C2HC zinc fingers;
sequence familyGAGA factor;
redundant complexes1yui_A
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRKRSEQRNR

Estimated binding specificities ?

readout + contactlogo
# IC=4.211 IC/col=0.702 n_of_columns=6 specificity:   
A |   7  12   2   2   1  45
C |  73  12  75   0  93   7
G |   9  12  14   0   1  36
T |   7  60   5  94   1   8
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: GAGA
GAGAGPubMed1yuj_A(1.25e-07), 1yui_A(1.20e-07)
GAGAGAGPubMed1yuj_A(6.51e-06), 1yui_A(6.32e-06)
GAGNGAGPubMed1yuj_A(3.46e-03), 1yui_A(3.38e-03)
GAGAGGGAGGAGPubMed1yuj_A(1.66e-04), 1yui_A(1.62e-04)
CCGAGAGGPubMed1yuj_A(1.82e-05), 1yui_A(1.77e-05)
TGTCTCPubMed1yuj_A(1.15e-03), 1yui_A(1.12e-03)
CGAGACPubMed1yuj_A(1.15e-03), 1yui_A(1.12e-03)
CCCTCPubMed1yuj_A(2.69e-03), 1yui_A(2.63e-03)

home
updated Sun Aug 3 06:03:11 2025