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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
(ARYL HYDROCARBON RECEPTOR NUCLEAR TRANSLOCATOR-LIKE PROTEIN...)
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 signatureHSIERR

Estimated binding specificities ?

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# IC=4.434 IC/col=0.887 n_of_columns=5 specificity:   
A |  16  13   0   0  96
C |  54  16   0   0   0
G |  13  54   0  96   0
T |  13  13  96   0   0
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: ARNT-like 1
CATGTGAPubMed4h10_A(1.02e-03), 4h10_AB(1.50e-07)
AACGTGAPubMed4h10_A(7.33e-07), 4h10_AB(3.32e-08)
term: BMAL1
CACGTGPubMed4h10_A(3.65e-04), 4h10_AB(1.18e-09)
GGCACGAGGCPubMed4h10_A(4.16e-03), 4h10_AB(1.89e-03)
CATGTGAPubMed4h10_A(1.02e-03), 4h10_AB(1.50e-07)
AACGTGAPubMed4h10_A(7.33e-07), 4h10_AB(3.32e-08)

Dendrogram of similar interfaces ?

matrix format
  
  ------HGNT--ECRCRG   L                    +----------------7d8t_A    
                               +------------1 
  ------HGNTMTEARCRG         +-2            +----------------1nlw_D    
                             ! ! 
  ------HG----ETRTRG       +-3 +-----------------------------5v0l_A    
                           ! ! 
  ------HG----ECRGRG   L --4 +-----------------------------4zpk_A    
                           ! 
  NTNGRTECRGRC------   L   +-----------------------------6od3_F

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updated Sun Aug 3 08:05:56 2025