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legend  pdf

structure nameCRYSTAL STRUCTURE OF THE COMPLEX COMPRISED OF ETS1, RUNX1, CBFBETA, AND THE TCRALPHA GENE ENHANCER DNA
(RUNT-RELATED TRANSCRIPTION FACTOR 1)
referenceShiina et al. J.Mol.Biol. 427 1655 2015
sourceMUS MUSCULUS
experimentX-ray (resolution=2.35, R-factor=0.249)
structural superfamilyp53-like transcription factors;
sequence familyRunt domain;
multimeric complexes3wts_AC 3wtt_AC 3wtu_AC 3wtv_AC 3wtw_AC 3wtx_AC 3wty_AC
redundant complexes3wtv_A 3wty_A 3wtt 3wtu 3wtw 3wtx
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRRVDRR

Estimated binding specificities ?

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# IC=7.208 IC/col=0.901 n_of_columns=8 specificity:   
A |  64  70   6   0   0  89   0  83
C |  12   8  12  96  96   7  96   6
G |   8  12  64   0   0   0   0   1
T |  12   6  14   0   0   0   0   6
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: CBFBETA
TGTGGCTGCCCACAPubMed3wts_A(1.21e-07), 3wts_AC(2.55e-04), 3wtt_AC(2.11e-03), ... (total=11)
TGTGGPubMed3wts_A(1.68e-06), 3wts_AC(1.39e-05), 3wtt_AC(6.05e-06), ... (total=11)
term: ETS1
CAGGAAGTPubMed3wts_AC(2.92e-04), 3wtt_AC(9.61e-05), 3wtu_AC(9.54e-05), ... (total=7)
CCGGAAGTPubMed3wtt_AC(1.10e-02), 3wtu_AC(1.10e-02), 3wtv_AC(9.77e-03), ... (total=5)
term: RUNX1
TGTGGPubMed3wts_A(1.68e-06), 3wts_AC(1.39e-05), 3wtt_AC(6.05e-06), ... (total=11)
ATGCCCCAGPubMed3wts_A(4.12e-04), 3wts_AC(5.26e-03), 3wtw_A(1.53e-03), ... (total=4)
TGGGGPubMed3wts_A(1.08e-02), 3wtw_A(4.31e-03), 3wty_F(2.85e-03)
CCCCAPubMed3wts_A(1.08e-02), 3wtw_A(4.31e-03), 3wty_F(2.85e-03)
NNCCACPubMed3wts_A(6.40e-03), 3wtv_A(1.13e-03), 3wtw_A(3.53e-03), ... (total=4)
TGTGGCTGCCCACAPubMed3wts_A(1.21e-07), 3wts_AC(2.55e-04), 3wtt_AC(2.11e-03), ... (total=11)

Dendrogram of similar interfaces ?

matrix format
  
  RGRTVCDC----RG   L                             +4l0y_A    
                                               +-1 
  RGRTVCDC----RG   L         +-----------------2 +3wu1_A    
                             !                 ! 
  RGRGVCDC----RG   L   +-----3                 +-1h9d_A    
                       !     ! 
  ----ATCT----RG     --4     +-------------------3qyn_C    
                       ! 
  KC--STNTVGSTQT   L   +-------------------------1bf5_A

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updated Fri Sep 13 17:55:39 2024