5lej_A : 3D-footprint complex

structure name	THE TRANSCRIPTIONAL REGULATOR PRFA FROM LISTERIA MONOCYTOGENES IN COMPLEX WITH A 30-BP OPERATOR PRFA-BOX MOTIF (Listeriolysin regulatory protein)
reference	Sauer-Eriksson et al. 'Proc. 113 14733 2016
source	Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e) / Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e) / Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
experiment	X-ray (resolution=2.70, R-factor=0.231)
structural superfamily	cAMP-binding domain-like;"Winged helix" DNA-binding domain;
multimeric complexes	5lej_AB 5lek_AB 5lrs_AB 5x6d_GH 5x6d_MN 5x6e_EF 5x6e_MN 6qwf_AB 6qwh_AB 6qwk_AB 6qwm_AB
redundant complexes	5lek_B 5lrs_A 5x6d_N 5x6e_N 6qwf_B 6qwh_A 6qwk_A 6qwm_B
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5lej_A interface=181,183,184,186,187, naqaeefkkyletngikpkqfhkkelifnqwdpqeyciflydgitkltsisengtimnlqyykgafvimsgfidtetsvgyynleviseqatayvikinelkellsknlthffyvfqtlqkqvsyslakfndfsingklgsicgqlliltyvygketpdgikitldnltmqelgyssgiaHsSAvSRiisklkqekvivyknscfyvqnldylkryapkldewfylacpatwgkln
interface signature	HSASR

Estimated binding specificities ?

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# IC=3.968 IC/col=0.794 n_of_columns=5

specificity:

A |   9  67  96   9  96
C |  11   9   0  67   0
G |   9  11   0   9   0
T |  67   9   0  11   0

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: PRFA
TTAACATTTGTTAA	PubMed	5lej_A(2.08e-05), 5lej_AB(1.89e-10), 5lek_AB(2.35e-08), ... (total=11)
TTAACANNTGTTAA	PubMed	5lej_A(2.08e-05), 5lej_AB(1.89e-10), 5lek_AB(2.35e-08), ... (total=11)
TTAACAGCGTTTGTTAA	PubMed	5lej_A(3.60e-05), 5lej_AB(3.76e-03), 5x6d_MN(1.42e-03), ... (total=8)

Dendrogram of similar interfaces ?

matrix format

  
  ----HT--STATSTRG----   L                         +---5lej_A    
                                                 +-3 
  ----STRGECTANGKG----   L        +--------------4 +---3mzh_A    
                                  !              ! 
  ----TTLTECTASTRG----   L   +----5              +----4i2o_B    
                             !    ! 
  --RGSTRGMCTTRT------   L   !    !                 +-4u0y_B    
                             !    +-----------------2 
  ETNTSCRGHC--RT------   L --7                      +-4h0e_A    
                             ! 
  --------------RCYG--       !                       +2acj_B    
                             !  +--------------------1 
  ----STKTPTTTFT----RA   L   +--6                    +4aso_F    
                                ! 
  ----TT--PTTCSTNT--RT   L      +---------------------4lln_I

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updated Fri Sep 13 19:59:55 2024