3f27_D : 3D-footprint complex

structure name	STRUCTURE OF SOX17 BOUND TO DNA (Transcription factor SOX-17)
reference	Palasingam et al. J.Mol.Biol. 388 619 2009
source	Mus musculus
experiment	X-ray (resolution=2.75, R-factor=0.243)
structural superfamily	HMG-box;
sequence family	HMG high mobility group box;
redundant complexes	6l6y_F
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 3f27_D interface=3,6,8,9,16,27,28,32,70, irRpmNaFMvwakdeRkrlaqqnpdlHNaelSkmlgkswkaltlaekrpfveeaerlrvqhmqdhpnykYrprr
interface signature	RNFMRHNSY

Estimated binding specificities ?

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# IC=6.185 IC/col=1.031 n_of_columns=6

specificity:

A |  96   0  96  96   1  38
C |   0  96   0   0  19  19
G |   0   0   0   0   0  19
T |   0   0   0   0  76  20

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Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: SOX17
CACAATG	PubMed	3f27_D(7.85e-06)
CCAAT	PubMed	3f27_D(4.30e-04)

Dendrogram of similar interfaces ?

matrix format

  
  RCNGFTMARTHTNG--ST--YA--   L     +-----------------------------6t90_L    
                                 +-4 
  RTNGFTIARA--NASGST--YAPG   L   ! +-----------------------------1j46_A    
                                 ! 
  RTNTFTMARA--NGACST--YA--   L --5                             +4s2q_D    
                                 !                    +--------1 
  RCNAFTIARG--NC--SALTYAKT   L   !         +----------2        +2gzk_A    
                                 !         !          ! 
  RGNTFTMART--NGRTSA--WANT   L   +---------3          +--------7m5w_A    
                                           ! 
  RCNTFTMARAHGNAACST------   L             +-------------------4euw_A

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updated Tue Dec 19 07:17:11 2023