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structure nameCO-CRYSTAL STRUCTURE OF XENOPUS TFIIIA ZINC FINGER DOMAIN BOUND TO THE 5S RIBOSOMAL RNA GENE INTERNAL CONTROL REGION
(PROTEIN TRANSCRIPTION FACTOR IIIA)
referenceHarrison et al. Proc.Natl.Acad.Sci.USA 95 2938 1998
sourceXenopus laevis
experimentX-ray (resolution=3.10, R-factor=0.308)
structural superfamilyC2H2 and C2HC zinc fingers;
sequence familyZinc finger, C2H2 type;
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureKWKHHRTANKRLSRR

Estimated binding specificities ?

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# IC=18.769 IC/col=0.782 n_of_columns=24 specificity:   
A |   4   0   0   0  24  66  24  24  24  24  24  24  10   0  96   0   0   0   0  96  91  68   0   4
C |   4   0   0   0  24  12  24  24  24  24  24  24   4   0   0   0   0   0   0   0   1   8  96  84
G |   8  96  96   0  24   8  24  24  24  24  24  24  12  96   0   0  96  96  96   0   4  12   0   4
T |  80   0   0  96  24  10  24  24  24  24  24  24  70   0   0  96   0   0   0   0   0   8   0   4
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: TFIIIA
GGATGGGAGPubMed1tf6_A(2.48e-05)
GGATGGGAGCPubMed1tf6_A(1.67e-04)
CTCCCATCCPubMed1tf6_A(2.48e-05)
TGGGAPubMed1tf6_A(8.36e-05)

Dendrogram of similar interfaces ?

matrix format
  
  NGKT--WTKG------HTHG--RGTGTT--ACNA--KGRG   L                    +1tf3_A    
                                                       +----------2 
  --RGSTDAHARGRGSTDCHG--TT--RG--DAEG--RG--   L   +-----4          +5kl3_A    
                                                 !     ! 
  RGST--YGYC--QC--TGSTRGYT----------------       !     +-----------4is1_C    
                                               --6 
  --QA--TCNA--QAHTTT----QA--TTLAHGTCDTRG--   L   !                 +1g2d_F    
                                                 !  +--------------1 
  --KT--STHT--RG--DAQA--RG--RGSTDCHG--TT--   L   !  !              +6b0o_A    
                                                 +--5 
  ----------KTEC--SCKG--RG--LT--FCNA------   L      !          +---1ubd_C    
                                                    +----------3 
  --EC--SCKGRG--TCYCKA--RG--QA----TC------                     +---5yeg_A    
                                               

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updated Fri Sep 13 16:02:21 2024