1ign_A : 3D-footprint complex

structure name	DNA-BINDING DOMAIN OF RAP1 IN COMPLEX WITH TELOMERIC DNA SITE (PROTEIN RAP1)
reference	Giraldo et al.
source	Saccharomyces cerevisiae
experiment	X-ray (resolution=2.25, R-factor=0.219)
structural superfamily	Homeodomain-like;
sequence family	Rap1, DNAbinding; Myblike DNAbinding domain;
multimeric complexes	1ign_AB
redundant complexes	3ukg_A 4gfb_A 6ldm_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 1ign_A interface=1,26,42,43,45,46,49,51,87,149,152,153,156,157,181,183,184,186, KasftdeedefildvvrknptrrttHtlydeishyvpnhtgNSiRHrfRvYlskrleyvyevdkfgklvrdddgnliktkvlppsiKrkfsadedytlaiavkkqfyrdlfqidpdtgrslirtqsrrgpiareffkhfaeehaahteNawRDrfRKfllaygiddyisyyeaeepmknlTpTPgNyns
interface signature	KHNSRHRYKNRDRKTTPN

Estimated binding specificities ?

readout + contact

# IC=15.608 IC/col=1.041 n_of_columns=15

specificity:

A |   3   0   0   0   0  17   1   0   9   0   0   0   3   4   6
C |   1   0   0   0   0   0   0   9   0   0   0  20   4   0   8
G |   6  96  96   0  96   3  92   4  71  96  96   6  89   6  76
T |  86   0   0  96   0  76   3  83  16   0   0  70   0  86   6

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: RAP1
CTGGGTGTCTGGG	PubMed	1ign_A(2.92e-07), 1ign_AB(6.88e-06), 4gfb_A(2.57e-07), ... (total=4)

Dendrogram of similar interfaces ?

matrix format

  
  ----------------------------RT--------   L                              +-----------------------------6ldm_A    
                                                                        +-1 
  --------------NCITNA--RGRG------------   L                          +-2 +-----------------------------6fqq_E    
                                                                      ! ! 
  ------------KGSAQA--------------------   L                        +-3 +-----------------------------6j5b_C    
                                                                    ! ! 
  --------------NCICNA--RGRG------------   L                      +-4 +-----------------------------6fqp_B    
                                                                  ! ! 
  --------VT--KGDCRGTA------------------   L                    +-5 +-----------------------------1w0u_A    
                                                                ! ! 
  --------------NT--NA----RG------------   L                  +-6 +-----------------------------1b8i_B    
                                                              ! ! 
  ------------FTYAQTNA--ATRG------------   L                +-7 +-----------------------------6ryd_F    
                                                            ! ! 
  --------------------------RT--NTNAIARG   L              +-8 +-----------------------------1puf_B    
                                                          ! ! 
  RT------------NT--NA--IARG------------   L            +-9 +-----------------------------4cyc_B    
                                                        ! ! 
  HTRT----------NCSTNA--RG--------------   L         +-10 +-----------------------------1k61_B    
                                                     !  !  
  ------RCET----SAQAKG------------------   L      +-11  +-----------------------------5lxu_A    
                                                  !  !  
  ----DTRGRCTT--KT----------------------   L   +-12  +-----------------------------2o9l_A    
                                               !  !  
  ------STVC--KGDCRG--------------------   L -13  +-----------------------------1w0t_A    
                                               !  
  ------------------YGRG----------------       +-----------------------------4wcg_A

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updated Tue Dec 19 05:44:45 2023