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structure nameCRYSTAL STRUCTURE OF HOXA9 AND PBX1 HOMEODOMAINS BOUND TO DNA
(PRE-B-CELL LEUKEMIA TRANSCRIPTION FACTOR-1)
referenceLaronde-Leblanc et al. 'Genes 17 2060 2003
sourceHOMO SAPIENS
experimentX-ray (resolution=1.90, R-factor=0.233)
structural superfamilyHomeodomain-like;
sequence familyHomeobox domain;
multimeric complexes1puf_AB
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRNNIR

Estimated binding specificities ?

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# IC=5.160 IC/col=0.860 n_of_columns=6 specificity:   
A |  21  67   0   0  96   9
C |   9   9   0  96   0   9
G |   9   9   0   0   0  11
T |  57  11  96   0   0  67
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: PBX1
ATCAATCAAPubMed1puf_B(1.14e-02), 1puf_AB(1.49e-03)
TGATTGACPubMed1puf_B(7.15e-03), 1puf_AB(7.14e-07)
TGATTGATPubMed1puf_B(7.15e-03), 1puf_AB(3.42e-04)
TTGATPubMed1puf_B(4.18e-04), 1puf_AB(7.82e-03)
TGATTAATPubMed1puf_B(7.15e-03), 1puf_AB(3.42e-04)
TTGATTGATPubMed1puf_B(1.14e-02), 1puf_AB(1.49e-03)
ATCAATCAPubMed1puf_B(7.15e-03), 1puf_AB(3.42e-04)

Dendrogram of similar interfaces ?

matrix format
  
  ----RT----NT--NAIARG----   L           +-----------------------------1b72_B    
                                       +-3 
  RA--RA----IAQTNA--------   L         ! !                         +---5ego_B    
                                     +-4 +-------------------------2 
  ------RT--NT--NAIARG----   L       ! !                           +---4cyc_B    
                                   +-5 ! 
  --RART----VTKGNAKA------   L     ! ! +-----------------------------2lkx_A    
                                 +-6 ! 
  ----------NCICNA----RGRG   L   ! ! +-----------------------------4xrm_B    
                                 ! ! 
  ----RC----IAQCNAYC------   L --7 +-----------------------------3rkq_B    
                                 ! 
  ----RT--QTVAQTNA--------   L   !                            +8osb_E    
                                 +----------------------------1 
  ----RT----IAQCNAMG------   L                                +1b72_A

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updated Sat Jan 10 04:53:40 2026