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structure nameCRYSTAL STRUCTURE OF THE N-TERMINAL CUT DOMAIN OF SATB1 BOUND TO MATRIX ATTACHMENT REGION DNA
(DNA-binding protein SATB1)
referenceYamasaki et al. 'Nucleic 35 5073 2007
sourceHomo sapiens
experimentX-ray (resolution=1.75, R-factor=0.245)
structural superfamilylambda repressor-like DNA-binding domains;
sequence familyCUT domain;
multimeric complexes6lff_AB
redundant complexes2o49_A 6lff_A
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureTQLSE

Estimated binding specificities ?

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# IC=4.007 IC/col=0.801 n_of_columns=5 specificity:   
A |   0  96   9  11  67
C |   0   0   9   9  11
G |   0   0   9   9   9
T |  96   0  69  67   9
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: SATB1
TAATAPubMed2o4a_A(2.54e-08), 6lff_AB(2.42e-04), 2o49_A(2.54e-08)
CTAATAPubMed2o4a_A(1.19e-07), 6lff_AB(6.13e-04), 2o49_A(1.19e-07)
AAATCAATATTPubMed2o4a_A(5.58e-03), 6lff_AB(1.84e-05), 2o49_A(5.58e-03)

Dendrogram of similar interfaces ?

matrix format
  
  ----TTQA--LTSAET----------   L                     +---------2o4a_A    
                                           +---------2 
  --STKCQAAT--SA------------   L       +---3         +---------3dnv_B    
                                       !   ! 
  ----SCQCAGRCSCKT----------   L     +-4   +-------------------6lty_B    
                                     ! ! 
  --AT--QAAT--SA------------         ! !                  +----4z5h_A    
                                   +-5 +------------------1 
  QT--STNTVTATSTQTRTET------   L   ! !                    +----2r1j_L    
                                 --6 ! 
  QT--TTQAQGSTECQT--------RA   L   ! +-------------------------1per_L    
                                   ! 
  ----NTQASAHTSTQT----TTPG--   L   +--------------------------1ic8_B

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updated Tue Dec 17 22:58:14 2024