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legend  pdf

structure nameCRYSTAL STRUCTURE OF MYC-MAX RECOGNIZING DNA
(MYC PROTO-ONCOGENE PROTEIN)
referenceBurley et al. 'Cell(Cambridge,Mass.)' 112 193 2003
sourceHOMO SAPIENS
experimentX-ray (resolution=1.80, R-factor=0.219)
structural superfamilyHLH, helix-loop-helix DNA-binding domain;
sequence familyHelixloophelix DNAbinding domain; Myc leucine zipper domain;
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureKHNERR

Estimated binding specificities ?

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# IC=3.101 IC/col=0.775 n_of_columns=4 specificity:   
A |   0  54   0  13
C |  96  13  96  13
G |   0  13   0  54
T |   0  16   0  16
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: MYC
CACGTGPubMed1nkp_A(4.51e-04), 1nkp_AB(8.79e-10), 1nkp_DE(1.19e-09)
CATGTGPubMed1nkp_AB(3.45e-05), 1nkp_DE(8.58e-05)
CACGTGTPubMed1nkp_A(1.25e-03), 1nkp_AB(2.57e-08), 1nkp_DE(3.33e-08)
CACCACGTGGTGPubMed1nkp_A(8.54e-03), 1nkp_AB(4.28e-06), 1nkp_DE(5.25e-06)
AACGTTPubMed1nkp_AB(3.47e-03), 1nkp_DE(4.01e-03)
AACGTGPubMed1nkp_A(4.51e-04), 1nkp_AB(6.52e-06), 1nkp_DE(8.14e-06)
CANNTGPubMed1nkp_AB(3.37e-03), 1nkp_DE(4.01e-03)
GGCCACGTGPubMed1nkp_A(3.55e-03), 1nkp_AB(5.43e-07), 1nkp_DE(6.80e-07)
CAACGTGPubMed1nkp_A(1.25e-03), 1nkp_AB(5.35e-05), 1nkp_DE(6.46e-05)

Dendrogram of similar interfaces ?

matrix format
  
  KT----HGNT----ECRCRG   L                               +1nkp_A    
                                                       +-1 
  ------HGNT--LGECRCRC   L                        +----3 +5i50_B    
                                                  !    ! 
  ------HGNT--MTEARCRG   L              +---------5    +-1nlw_D    
                                        !         ! 
  ------HGNT----ECRCRG   L            +-6         +------7d8t_A    
                                      ! ! 
  ------HGNT----ECRCRG   L            ! !              +-1nkp_E    
                               +------8 +--------------4 
  ------HG------ETRCRG   L     !      !                +-5gnj_I    
                             +-9      ! 
  --NTRGEC----RC------       ! !      +-----------------2ql2_A    
                             ! ! 
  ----------NG--SCHTRC     -10 +------------------------5nj8_C    
                             !  
  ------HGNT--ITECYCRC   L   !       +-----------------7f2f_B    
                             +-------7 
  ------HGST--ITETRCRG   L           !                +4h10_A    
                                     +----------------2 
  ------HG------ETRTRG   L                            +5v0l_A

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updated Mon Dec 16 18:16:57 2024