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structure nameSTRUCTURE OF RESTRICTION ENDONUCLEASE FOKI BOUND TO DNA
(PROTEIN FOKI RESTRICTION ENDONUCLEASE)
referenceSchildkraut et al.
sourcePLANOMICROBIUM OKEANOKOITES
experimentX-ray (resolution=2.80, R-factor=0.214)
structural superfamilyRestriction endonuclease-like;"Winged helix" DNA-binding domain;
sequence familyRestriction endonuclease FokI, C termi; Restriction endonuclease FokI, recogni; Restriction endonuclease FokI, catalyt;
links to other resourcesNAKB PDBSum PDIdb DNAproDB
protein sequence
interface signatureQNRQDNWNNESKRM

Estimated binding specificities ?

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# IC=6.795 IC/col=0.971 n_of_columns=7 specificity:   
A |  10   0   0  93   0   0  47
C |  69   0   0   0   0   1  19
G |  15  96  89   1   2  95  13
T |   2   0   7   2  94   0  17
scan!

Related DNA sequences reported in the literature ?


sitesourcematches (E-value)
term: FOKI
GGATGPubMed1fok_A(7.08e-07)
CATCCPubMed1fok_A(7.08e-07)
CGATGCPubMed1fok_A(3.39e-03)
CATTCPubMed1fok_A(6.33e-03)
GGATGCPubMed1fok_A(6.29e-06)
CACCCPubMed1fok_A(5.92e-03)

Dendrogram of similar interfaces ?

matrix format
  
  QANARGQGDTNTWCNGNCECSA--KG--RGMG----------------------------------------------   L                       +------------------------1fok_A    
                                                                                                        +--7 
  --------------------------------------RGRTKG----------------------------------   L                  +-8  +------------------------6lui_A    
                                                                                                      ! ! 
  ------------------------------------------------------NTTCTA----------------RT   L               +-10 +---------------------------5zux_A    
                                                                                                   !  !  
  ----------------------------------------------SGQG--YCNC----------------------                +-11  +----------------------------2ve9_C    
                                                                                                !  !  
  ----------------------------------------------------------------YG------------                !  !                         +--2heo_D    
                                                                                             +-12  +-------------------------3 
  ----------------------KTPTTTFT------------------------------------------------             !  !                            +--4ass_H    
                                                                                             !  !  
  ------------------------------------------------------------IA--KGNA----------   L         !  +-----------------------------2hdd_A    
                                                                                             !  
  ------------------------------------MG------------TGQAAT------SARG------------   L      +-13                          +--2p5l_D    
                                                                                          !  !           +--------------2 
  --------------------------------------------DT------RGRC----TT--KT--------RT--   L      !  ! +---------5              +--2o9l_A    
                                                                                          !  ! !         ! 
  ----------------------------------RT----------------STVC--KGDC--RG------------   L      !  ! !         +-----------------1w0t_A    
                                                                                          !  +-9 
  ------------------------------------------------------------NC--ITNARGRG------   L      !    !     +---------------------6fqq_E    
                                                                                       +-14    +-----6 
  --------------------------------RA--------------------------IT--QTNAMG--------   L   !  !          !     +---------------5zjt_E    
                                                                                       !  !          +-----4 
  ------------------------------------------------------------IA----NA----------       !  !                !              +4qtr_D    
                                                                                     -15  !                +--------------1 
  ------------------------------------------------------------IT--QCNAACRG------   L   !  !                               +6a8r_A    
                                                                                       !  !  
  ------------------------------------------------------------NT----NA--RG------   L   !  +-----------------------------1b8i_B    
                                                                                       !  
  ----------------------------------------------------------KTIA--QCNA----RT----   L   +-----------------------------1ig7_A    
                                                                                     

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updated Tue Dec 19 05:38:46 2023