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legend  pdf

structure nameCRYSTAL STRUCTURE OF RESTRICTION ENDONUCLEASE BFII C-TERMINAL RECOGNITION DOMAIN IN COMPLEX WITH COGNATE DNA
(RESTRICTION ENDONUCLEASE)
referenceSasnauskas et al.
sourceBACILLUS FIRMUS
experimentX-ray (resolution=3.20, R-factor=0.180)
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureARQTYWRENNFDRRN

Estimated binding specificities ?

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# IC=6.915 IC/col=0.988 n_of_columns=7 specificity:   
A |  12   0   0  96   0   0  12
C |  60  96  96   0   0  12  12
G |  12   0   0   0  96   0  60
T |  12   0   0   0   0  84  12
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: BFII
ACTGGGPubMed3zi5_A(6.24e-06)
CCTGGPubMed3zi5_A(1.00e-03)

Dendrogram of similar interfaces ?

matrix format
  
  AC--RG--QTTA--YCWCRA----ET----NGNGFADC--RGRCNC   L      +-----------3zi5_A    
                                                       +--6 
  ----------RGHG--LC------YC--RGYG--EC--RT------   L   !  +-----------5o63_B    
                                                       ! 
  --KA--ST--LT--RGIT----WCNT--------MA----------   L   !              +6j9b_A    
                                                     --7            +-2 
  ----------HG--------------RG----PT------------   L   !   +--------4 +6ycq_A    
                                                       !   !        ! 
  ----------------ST--------RC----PT------------   L   !   !        +-6sdg_B    
                                                       +---5 
  ------ST------RG------WCNC--------MA----------   L       !         +6j9c_D    
                                                           +---------3 
  ----------IT--RGVT--WC--NCNT------MA----------   L                 ! +6fas_B    
                                                                     +-1 
  ----------IT--RGVT--WC--NCNG------MA----------   L                   +5yzz_C

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updated Fri Sep 13 18:00:04 2024