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structure nameINTERMOLECULAR RECOGNITION REVEALED BY THE COMPLEX STRUCTURE OF HUMAN CLOCK-BMAL1 BASIC HELIX-LOOP-HELIX DOMAINS WITH E-BOX DNA
(CIRCADIAN LOCOMOTER OUTPUT CYCLES PROTEIN KAPUT)
referenceSu et al. 'Cell 23 213 2013
sourceHOMO SAPIENS
experimentX-ray (resolution=2.40, R-factor=0.198)
structural superfamilyHLH, helix-loop-helix DNA-binding domain;
sequence familyHelixloophelix DNAbinding domain;
multimeric complexes4h10_AB
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureRNERR

Estimated binding specificities ?

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# IC=3.142 IC/col=0.786 n_of_columns=4 specificity:   
A |   0  96  13  13
C |  96   0  54  13
G |   0   0  16  57
T |   0   0  13  13
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: CLOCK
CACGTGPubMed4h10_B(3.59e-04), 4h10_AB(1.18e-09)
AACGTGAPubMed4h10_B(1.02e-03), 4h10_AB(3.32e-08)
GGCACGAGGCPubMed4h10_B(4.11e-03), 4h10_AB(1.89e-03)
CATGTGAPubMed4h10_AB(1.50e-07)
CACGTTPubMed4h10_B(3.59e-04), 4h10_AB(8.12e-06)
CANNTGPubMed4h10_AB(3.57e-03)
CACGNGPubMed4h10_B(3.59e-04), 4h10_AB(7.43e-06)
term: circadian locomotor output cycles kaput
GTGCGTGACAPubMed4h10_B(4.11e-03), 4h10_AB(7.98e-04)
GGCACGAGGCPubMed4h10_B(4.11e-03), 4h10_AB(1.89e-03)
CACGNGPubMed4h10_B(3.59e-04), 4h10_AB(7.43e-06)
CACGTGPubMed4h10_B(3.59e-04), 4h10_AB(1.18e-09)
CACGTTPubMed4h10_B(3.59e-04), 4h10_AB(8.12e-06)
sitesourcematches (E-value)

Dendrogram of similar interfaces ?

matrix format
  
  RT----NT--RGECRCQT                                +2ypa_A    
                                  +-----------------1 
  ----HGNT----ECRCRG   L      +---3                 +7d8t_A    
                              !   ! 
  ----HG------ETRTRG       +--4   +-----------------5v0l_A    
                           !  ! 
  NTNGRTECRG--RC----   L --5  +---------------------6od3_F    
                           ! 
  ----ST------ATRTRG       !                        +4zpk_B    
                           +------------------------2 
  ----HGNT--MTEARCRG                                +1nlw_D    
                         

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updated Fri Sep 13 18:18:55 2024