interface graph thumbnail
legend  pdf

structure nameCRYSTAL STRUCTURE OF SMAD3-MH1 BOUND TO THE GGCGC SITE.
(Mothers against decapentaplegic homolog 3)
referenceKaczmarska et al. 'Nat 8 2070 2017
sourceHomo sapiens
experimentX-ray (resolution=2.00, R-factor=0.197)
structural superfamilySMAD MH1 domain;
sequence familyMH1 domain;
multimeric complexes1mhd_AB 1ozj_AB
redundant complexes1mhd_B 1ozj_B 5odg_A 6zmn_B
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureDRQK

Estimated binding specificities ?

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# IC=2.040 IC/col=0.510 n_of_columns=4 specificity:   
A |   4  13   9   9
C |   4  13  72   8
G |  82  49   7  72
T |   6  21   8   7
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: SMAD3
GTCTAGACPubMed1mhd_AB(6.56e-08), 1ozj_AB(1.10e-13), 1mhd_B(1.79e-05), ... (total=4)
CAGACAPubMed1mhd_AB(7.82e-05), 1ozj_AB(4.08e-05), 1mhd_B(1.13e-03), ... (total=4)
TGCCAGACAPubMed1mhd_AB(8.10e-03), 1ozj_AB(1.67e-04), 1mhd_B(1.03e-02), ... (total=4)
TGTGTATTPubMed1mhd_AB(3.04e-05), 1ozj_AB(6.73e-03)

Dendrogram of similar interfaces ?

matrix format
  
  --RGQC--KG   L            +5od6_A    
                          +-1 
  DCRGQC--KG   L   +------4 +6tbz_A    
                   !      ! 
  --RGQA--KA   L   !      +-6h3r_A    
                 --6 
  DCRGQC--KG   L   !      +-6fzt_A    
                   !      ! 
  --RGQAHTKG   L   +------5   +5x6g_A    
                          ! +-2 
  --RGQA--KG   L          +-3 +3kmp_A    
                            ! 
  DCRGQC--KG   L            +6zmn_B    
                 

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updated Tue Dec 19 11:07:39 2023