5v3g_A : 3D-footprint complex

structure name	PRDM9-ALLELE-C ZNF8-13 (PR domain zinc finger protein 9)
reference	Patel et al. 'J. 292 15994 2017
source	Homo sapiens
experiment	X-ray (resolution=2.42, R-factor=0.176)
structural superfamily	beta-beta-alpha zinc fingers;
sequence family	Zinc finger, C2H2 type;
reference complex	5ei9_F
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5v3g_A interface=16,18,19,22,43,44,46,47,72,74,75,100,102,103,106,128,130,131,158,159,162, sekpyvcrecgrgfsNkSHllRhqrthtgekpyvcrecgrgfRDkSHllshqrthtgekpyvcrecgrgfrDkSNllshqrthtgekpyvcrecgrgfsWqSVllRhqrthtgekpyvcrecgrgfrDkSNllshqrthtgekpyvcrecgrgfrnkSHllRhqrtht
interface signature	NSHRRDSHDSNWSVRDSNSHR

Estimated binding specificities ?

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# IC=21.218 IC/col=1.061 n_of_columns=20

specificity:

A |  10  65   0   0   0   0  91   8   0   4  96   8   0   0   0   4  24   0   0   0
C |   8   8  96  96  96  96   0   8   0   4   0   0  96   0   0   4  24  96  96  96
G |  74  13   0   0   0   0   5  72   0  80   0  87   0  96   0   6  24   0   0   0
T |   4  10   0   0   0   0   0   8  96   8   0   1   0   0  96  82  24   0   0   0

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Dendrogram of similar interfaces ?

matrix format

  
  SGHGRGRGDC--SCHG----DCSANA----WC--SCVG--RGDCSGNA------STHGRG--   L                    +-----------5v3g_A    
                                                                                     +--2 
  --------------------ECSGKGRG--DG--YCKG--RGQA--TC----RASCDCVT--   L                 !  !   +-------5k5h_A    
                                                                            +--------3  +---1 
  ----------------------------NGKT--WTKG------HTHGRGTGTTACNAKGRG   L        !        !      +-------1tf3_A    
                                                                          +-4        ! 
  ------------------RGSTYGYC----QC--TGSTRGYT--------------------          ! !        +--------------4is1_C    
                                                                       +--5 ! 
  --------QA----TCRG--RGYCRT------------------------------------   L   !  ! +-----------------------7txc_E    
                                                                     --6  ! 
  --------------------NTSTNAVT--QTSTSGKG--RG--------------------   L   !  +------------------------6u9q_A    
                                                                       ! 
  ------QT--AG--KGRG--RGDCKG------------------------------------   L   +---------------------------7n5w_A

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updated Sun Jun 28 14:02:23 2026