5nm9_A : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF THE PLACOZOA TRICHOPLAX ADHAERENS SMAD4-MH1 BOUND TO THE GGCGC SITE. (Mothers against decapentaplegic homolog)
reference	Kaczmarska et al. 'Nat 8 2070 2017
source	Trichoplax adhaerens
experiment	X-ray (resolution=2.43, R-factor=0.222)
structural superfamily	SMAD MH1 domain;
sequence family	MH1 domain;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5nm9_A interface=67,69,74, atlgivhtlmchrqggesenfakraveslvkklkdkrdeldalitavtsngiqqskcvtiartldgRlQvagkKgfphviysriwrwpdlhknelkhiklckfafdlkldhvcvnpyhyerv
interface signature	RQK

Estimated binding specificities ?

readout + contact

# IC=4.693 IC/col=0.782 n_of_columns=6

specificity:

A |  14   0   0  14   0  14
C |  14  96   0  51  96  61
G |  51   0  96  17   0   7
T |  17   0   0  14   0  14

scan!

Dendrogram of similar interfaces ?

matrix format

  
  DCRGQC--KG   L            +6tbz_A    
                          +-2 
  --RGQC--KG   L   +------4 +5od6_A    
                   !      ! 
  --RGQA--KA   L   !      +-6h3r_A    
                 --6 
  DCRGQC--KG   L   !      +-6fzt_A    
                   +------5 
  --RGQA--KG   L          ! +3kmp_A    
                          +-3 
  DCRGQC--KG   L            ! +6zmn_B    
                            +-1 
  --RGQAHTKG   L              +5x6g_A

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updated Fri Sep 13 20:06:50 2024