3bm3_A : 3D-footprint complex

structure name	RESTRICTION ENDONUCLEASE PSPGI-SUBSTRATE DNA COMPLEX (PspGI restriction endonuclease)
reference	Szczepanowski et al.
source	Pyrococcus sp. GI-H
experiment	X-ray (resolution=1.70, R-factor=0.171)
structural superfamily	Restriction endonuclease-like;
multimeric complexes	3bm3_AB
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 3bm3_A interface=93,96,97,161,163,164,165, vrnlviditkkptqnipptneiieeaitelnvdelldrlfekdesgevitpsriakmleekafeiykeyekqvreaylsagysrekleqsfqQarFSrggkafeiiftkllnkfgiryehdrvikiydyitegekpafiipsvrtflndpssailitvkrKvRERwreavgeaqilrnkfgdeinfwfvgfdeeftiysaiamldngidrvyvidgrydslieeikrisdpnfnedkyiqkirrfsdifddiiqflnkh
interface signature	QFSKRER

Estimated binding specificities ?

readout + contact

# IC=4.475 IC/col=0.895 n_of_columns=5

specificity:

A |  13   0   0   0  13
C |  57  96   0   0  13
G |  13   0  96  96  16
T |  13   0   0   0  54

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Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: PSPGI
CCGGC	PubMed	3bm3_A(1.36e-04), 3bm3_AB(3.54e-04)
GCCGGC	PubMed	3bm3_A(3.59e-04), 3bm3_AB(1.12e-03)

Dendrogram of similar interfaces ?

matrix format

  
  TAEAAAFAYAQGRAFCSARA--AARAKGRGECRG------   L                     +---------3bm3_A    
                                                   +---------------1 
  --RAEAYAFA--RAKCSCRAAASA----KGDGRG------   L   +-2               +---------3hqg_A    
                                                 ! ! 
  ----------------------------RG----RG--RC   L --3 +-------------------------4abt_B    
                                                 ! 
  --------------------------TTQT------FT--       +---------------------------7dwr_B

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updated Fri Sep 13 16:54:49 2024