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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 complexes1b72_AB 1b8i_AB 1puf_AB 2r5y_AB 2r5z_AB 4cyc_AB 4uus_AB 4uus_EF 5zjq_AB 5zjr_AB 5zjs_AB
redundant complexes1lfu_P 5zjr_B 1b72 1b8i 2r5y 2r5z 4cyc 4uus 5zjq 5zjs
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRNNIR

Estimated binding specificities ?

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# IC=5.257 IC/col=0.876 n_of_columns=6 specificity:   
A |  67   0   0  96   9  67
C |  11   0   0   0  21   1
G |   9   0  96   0   9   9
T |   9  96   0   0  57  19
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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
  
  RART--VTKGNAKA----   L       +-----------------------------2lkx_A    
                             +-2 
  --RC--IAQCNAYC----   L   +-3 +-----------------------------3rkq_B    
                           ! ! 
  ------NCICNA--RGRG   L --4 +-----------------------------4xrm_B    
                           ! 
  --RTQTVAQTNA------   L   !                            +8osb_E    
                           +----------------------------1 
  --RT--IAQCNAMG----   L                                +1b72_A

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updated Fri Sep 13 15:56:14 2024