2e52_A : 3D-footprint complex

structure name	CRYSTAL STRUCTURAL ANALYSIS OF HINDIII RESTRICTION ENDONUCLEASE IN COMPLEX WITH COGNATE DNA AT 2.0 ANGSTROM RESOLUTION (TYPE II RESTRICTION ENZYME HINDIII)
reference	Watanabe et al. 'Acta 65 1326 2009
source	HAEMOPHILUS INFLUENZAE
experiment	X-ray (resolution=2.00, R-factor=0.177)
sequence family	HindIII restriction endonuclease;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 2e52_A interface=56,60,61,88,116,117,118,120,122,123,125, kksalekllslienltnqefkqatnslisfiyklnrnevielvrsigilpeaikpSstqEKlfskagdivlakafqllnlnskpleqRgnagdvialskefnyglvadaksfrlsRTAkNqKDfKvkalsewredkdyavltapffqypttksqifkqsldenvllfswehlaillqldleetnifsfeqlwnfpkkqskktsvsdaennfmrdfnkyfmdlfkidkdtlnqllqkeinfieersliekeywkkqiniiknftreeaieallkdinmsskietidsfikgiksndrlyl
interface signature	SEKRRTANKDK

Estimated binding specificities ?

readout + contact

# IC=6.264 IC/col=0.895 n_of_columns=7

specificity:

A |   6  96  96   0  23   6   0
C |  71   0   0   0  54  61   6
G |  13   0   0  96   6   6   1
T |   6   0   0   0  13  23  89

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: HINDIII
AAGCTT	PubMed	2e52_A(1.98e-05), 2e52_AB(1.18e-08), 2e52_CD(3.65e-09)
AGCTT	PubMed	2e52_A(1.03e-03), 2e52_AB(3.60e-06), 2e52_CD(1.62e-06)
AATCTT	PubMed	2e52_AB(3.29e-04), 2e52_CD(1.66e-04)
AAGGTT	PubMed	2e52_AB(3.29e-04), 2e52_CD(1.66e-04)
AGCCT	PubMed	2e52_A(9.00e-07), 2e52_CD(9.72e-03)
ATCTT	PubMed	2e52_CD(9.72e-03)
ATAAG	PubMed	2e52_AB(3.44e-03)
AGCTC	PubMed	2e52_AB(2.91e-03), 2e52_CD(1.77e-03)
TGCTT	PubMed	2e52_A(1.03e-03), 2e52_AB(2.91e-03), 2e52_CD(1.77e-03)
GGCTT	PubMed	2e52_A(8.78e-07), 2e52_AB(2.91e-03), 2e52_CD(1.77e-03)
AGCGT	PubMed	2e52_A(7.00e-03), 2e52_CD(9.72e-03)
AAGTTT	PubMed	2e52_AB(3.29e-04), 2e52_CD(1.66e-04)
AGCAT	PubMed	2e52_A(1.22e-02), 2e52_CD(9.72e-03)
AGTAAG	PubMed	2e52_AB(1.17e-02)
TTTCAATCTTTTTATTT	PubMed	2e52_AB(5.90e-03)
CTACTAACGCTTGGCTGGCA	PubMed	2e52_A(3.80e-04), 2e52_AB(1.24e-04)
site	source	matches (E-value)

Dendrogram of similar interfaces ?

matrix format

  
  ST--EAKT--------RCTTATNT--KGDCKA   L       +----------------------2e52_A    
                                         +---2 
  --QGRCSGAAEA----------RGECRG----   L   !   +----------------------2gb7_A    
                                       --3 
  ------------NC------------TT----   L   !   +----------------------1sx5_A    
                                         +---1 
  ----TAKT------WC----------------   L       +----------------------2ost_A

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updated Mon Dec 18 06:40:31 2023