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structure nameEGR-1 WITH DOUBLY METHYLATED DNA
(Early growth response protein 1)
referenceZandarashvili et al.
sourceHomo sapiens
experimentX-ray (resolution=1.41, R-factor=0.174)
structural superfamilybeta-beta-alpha zinc fingers;
sequence familyZinc finger, C2H2 type;
multimeric complexes1p47_AB
redundant complexes1a1f_A 1a1g_A 1a1h_A 1a1i_A 1a1j_A 1a1k_A 1a1l_A 1aay_A 1jk1_A 1jk2_A 1p47_A 1zaa_C 4r2a_A 4r2c_A 4r2d_A
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRDERRSDHTRDER

Estimated binding specificities ?

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# IC=6.227 IC/col=0.623 n_of_columns=10 specificity:   
A |  39  24  24   0   0   0  96  24  24   0
C |  19  24  24  96  96  96   0  24  24  76
G |  19  24  24   0   0   0   0  24  24   0
T |  19  24  24   0   0   0   0  24  24  20
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: ZIF268
GCGTGGGCGPubMed4x9j_A(3.18e-11), 1p47_AB(2.76e-12), 4r2a_A(2.53e-10), ... (total=17)
GCGTGGGGCGPubMed4x9j_A(2.13e-04), 1p47_AB(1.52e-05), 4r2a_A(5.33e-07), ... (total=17)
AGCGTGGGCGTPubMed4x9j_A(1.92e-09), 1p47_AB(1.92e-12), 4r2a_A(1.15e-08), ... (total=17)

Dendrogram of similar interfaces ?

matrix format
  
  RGDC--SCHG----DC--SANA----WCSCVG--RG--   L           +-------------------5v3g_A    
                                                       ! 
  ------SA--MT--VT----NARG----ETTG------             +-5                +--6e94_A    
                                                     ! !   +------------2 
  --EC--SGKGRG--DG--YCKGRG--QA--TC------   L         ! +---4            +--5k5h_A    
                                                   +-6     ! 
  --------------QA----TCRG--RGYCRT------   L       ! !     +---------------7txc_E    
                                                 +-7 ! 
  --CT--STQTLTITST--STHTRG--RG--EA--RA--   L     ! ! +---------------------5v3j_F    
                                               +-8 ! 
  --NT--STNAVT--QTSTSGKGRG--------------   L   ! ! +-----------------------6u9q_A    
                                               ! ! 
  QT--AG--KGRG--RG--DCKG----------------   L   ! +------------------------7n5w_A    
                                             --9 
  --KG--WTKA--------HCHGRG--TAACNA--KGRG   L   !                          +1tf6_A    
                                               !              +-----------1 
  NGKT--WTKG--------HTHGRGTGTTACNA--KGRG   L   +--------------3           +1tf3_A    
                                                              ! 
  ------------RGST--YGYC----QCTGSTRGYT--                      +-----------4is1_C    
                                             

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updated Fri Sep 13 18:58:39 2024