1fok_A : 3D-footprint complex

structure name	STRUCTURE OF RESTRICTION ENDONUCLEASE FOKI BOUND TO DNA (PROTEIN FOKI RESTRICTION ENDONUCLEASE)
reference	Schildkraut et al.
source	PLANOMICROBIUM OKEANOKOITES
experiment	X-ray (resolution=2.80, R-factor=0.214)
structural superfamily	Restriction endonuclease-like;"Winged helix" DNA-binding domain;
sequence family	Restriction endonuclease FokI, C termi; Restriction endonuclease FokI, recogni; Restriction endonuclease FokI, catalyt;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 1fok_A interface=9,10,76,92,100,101,102,214,215,217,219,222,225,226, kirtfgwvQNpgkfenlkrvvqvfdrnskvhnevknikiptlvkeskiqkelvaimnqhdliytykelvgtgtsiRseapcdaiiqatiadQgnkkgyiDNWssdgflrwahalgfieyinksdsfvitdvglaysksadgsaiekeilieaissyppairiltlledgqhltkfdlgknlgfsgesgftslpegilldtlanampkdkgeirNNwEgSsdKyaRMiggwldklglvkqgkkefiiptpdnkefishafkitgeglkvlrrakgsvpkrvywemlatnltdkeyvrtrralileilikagslkieqiqdnlkklgfdevietiendikglintgifieikgrfyqlkdhilqfvipnrgvtkqlvkseleekkselrhklkyvpheyielieiarnstqdrilemkvmeffmkvygyrgkhlggsrkpdgaiytvgspidygvivdtkaysggynlpigqademqryveenqtrnkhinpnewwkvypssvtefkflfvsghfkgnykaqltrlnhitncngavlsveelliggemikagtltleevrrkfnngeinf
interface signature	QNRQDNWNNESKRM

Estimated binding specificities ?

readout + contact

# IC=6.585 IC/col=0.941 n_of_columns=7

specificity:

A |  10   0   0  92   0   4  46
C |  68   1   0   0   0   0  20
G |  15  95  90   1   2  92  12
T |   3   0   6   3  94   0  18

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: FOKI
GGATG	PubMed	1fok_A(7.08e-07)
CATCC	PubMed	1fok_A(7.08e-07)
CGATGC	PubMed	1fok_A(3.39e-03)
CATTC	PubMed	1fok_A(6.33e-03)
GGATGC	PubMed	1fok_A(6.29e-06)
CACCC	PubMed	1fok_A(5.92e-03)

Dendrogram of similar interfaces ?

matrix format

  
  QANARGQGDTNTWCNGNCECSAKGRGMG--------------------   L                     +----------1fok_A    
                                                                +----------1 
  ----------------------------------------YG------           +--2          +----------3eyi_B    
                                                             !  ! 
  ----------------------------RC--------IAQCNAYC--   L     +-3  +---------------------3rkq_B    
                                                           ! ! 
  --------------------------------------NCICNARGRG   L   +-4 +------------------------4xrm_B    
                                                         ! ! 
  ------------------------------TTKATTQTTGLTRT--KA   L --5 +-------------------------2p7c_B    
                                                         ! 
  ------------------------------------QTVAQTNA----   L   +--------------------------8osb_E

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updated Fri Sep 13 15:36:21 2024