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legend  pdf

structure nameTFIIIA FINGER 1-3 BOUND TO DNA, NMR, 22 STRUCTURES
(TRANSCRIPTION FACTOR IIIA)
sourceXENOPUS LAEVIS
experimentNMR
structural superfamilybeta-beta-alpha zinc fingers;
sequence familyZinc finger, C2H2 type;
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureNKWKHHRTTANKR

Estimated binding specificities ?

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# IC=10.610 IC/col=0.965 n_of_columns=11 specificity:   
A |  15   4   4   8   0   0   0  96   0  21   0
C |   4  15  78   8  96  96  96   0   0  61  96
G |  21   8  10   2   0   0   0   0   0  10   0
T |  56  69   4  78   0   0   0   0  96   4   0
scan!

Dendrogram of similar interfaces ?

matrix format
  
  NGKT--WTKG--------HTHGRGTGTT--ACNA--KGRG   L                            +1tf3_A    
                                                                        +-2 
  --KG--WTKA--------HCHGRG--TA--ACNA--KGRG   L               +----------3 +1tf6_A    
                                                             !          ! 
  --RGSTDAHARG--RGSTDCHGTT--RG--DAEG--RG--   L             +-5          +-5kl3_A    
                                                           ! ! 
  ------------RGST--YGYC----QC--TGSTRGYT--               +-6 +------------4is1_C    
                                                         ! ! 
  --EC----KGRG--LT--FCNA----QA--TTNA------   L       +---7 +-------------1ubd_C    
                                                     !   ! 
  --RA----NC------ATSGDCKG--DCPTSGSARTKG--   L       !   !    +---------2gli_A    
                                                     !   +----4 
  --QA--TCNA----QAHTTT--QA--TTLAHGTCDTRG--   L   +---8        !         +1g2d_F    
                                                 !   !        +---------1 
  --RG--DAQARG--RGSTDCHGTT--RG--DAEG--RG--   L   !   !                  +6b0o_A    
                                               --9   ! 
  --EC--SCKGRG----TCYCKARG--QA----TC------       !   +------------------5yeg_A    
                                                 ! 
  --------YG----WT--WTSTET--FTVASGDCSART--   L   +----------------------6a57_A    
                                               

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updated Fri Sep 13 16:02:14 2024