3odh_F : 3D-footprint complex

structure name	STRUCTURE OF OKRAI/DNA COMPLEX (OkrAI endonuclease)
reference	Aggarwal et al. 'Nucleic 39 712 2011
source	Oceanobacter kriegii
experiment	X-ray (resolution=2.30, R-factor=0.159)
structural superfamily	Restriction endonuclease-like;
sequence family	Restriction endonuclease BamHI;
multimeric complexes	3odh_AB 3odh_EF
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 3odh_F interface=81,104,106,110,134,137,141,142,143, mkikrievlinngsvpgipmilneiqdaiktvswpegnnsfvinpvrkgngvkpiknscmrhlhqkgwalehpvrikaemRpgpldavkmiggkafalewetgNiSsshRainkmvmgmlerviiggvlilpsRdmYnylTDRvgnfrelepyfsvwrqfnlkdaylaiveiehdsvdaqvslipkgtdgrair
interface signature	RNSRRYTDR

Estimated binding specificities ?

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# IC=5.894 IC/col=0.589 n_of_columns=10

specificity:

A |  13  54  24  24  24  24   0   0   0  96
C |  16  27  24  24  24  24   0  96  96   0
G |  13  13  24  24  24  24   0   0   0   0
T |  54   2  24  24  24  24  96   0   0   0

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Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: OKRAI
TATGGATCCATA	PubMed	3odh_F(9.57e-09), 3odh_AB(6.26e-08)

Dendrogram of similar interfaces ?

matrix format

  
  --RT------NG------RGRTYTTTDCRG   L         +------------------3odh_F    
                                       +-----1 
  ----RC----------RT------------   L   !     +------------------4dav_B    
                                     --3 
  AA----RAKGRGECRG--------------   L   !   +--------------------3bm3_A    
                                       +---2 
  ------------AAEARG------------   L       +--------------------5dwa_A

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updated Fri Sep 13 17:31:55 2024