1a1i_A : 3D-footprint complex

structure name	RADR (ZIF268 VARIANT) ZINC FINGER-DNA COMPLEX (GCAC SITE) (RADR ZIF268 ZINC FINGER PEPTIDE)
reference	Elrod-Erickson et al.
source	Mus musculus
experiment	X-ray (resolution=1.60, R-factor=0.191)
structural superfamily	beta-beta-alpha zinc fingers;
sequence family	Zinc finger, C2H2 type;
multimeric complexes	1p47_AB
redundant complexes	1zaa 1jk1 1a1l 1a1j 1a1f 1jk2 1a1h 1a1g 1a1k 1p47 1aay
reference complex	4x9j_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 1a1i_A interface=16,19,22,44,45,46,47,50,72,74,75,78, rpyacpvescdrrfsRsaDltRhirihtgqkpfqcricmrnfsRSDHltThirthtgekpfacdicgrkfaRsDErkRhtkihlr
interface signature	RDRRSDHTRDER

Estimated binding specificities ?

readout + contact

# IC=7.389 IC/col=0.924 n_of_columns=8

specificity:

A |   4   1   4   3   9   0   0   3
C |   4  81   3   5   1   0   0  65
G |  81   1  86   7  84  96  95   2
T |   7  13   3  81   2   0   1  26

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: ZIF268
AGCGTGGGCGT	PubMed	1a1i_A(2.48e-12), 1p47_AB(1.90e-12), 1zaa_C(2.75e-13), ... (total=13)
GCGTGGGCG	PubMed	1a1i_A(1.21e-13), 1p47_AB(2.72e-12), 1zaa_C(1.22e-15), ... (total=13)
GCGTGGGGCG	PubMed	1a1i_A(8.38e-09), 1p47_AB(1.42e-05), 1zaa_C(6.30e-07), ... (total=13)
GGGCGG	PubMed	1a1i_A(6.34e-03), 1p47_AB(6.29e-07), 1zaa_C(8.54e-05), ... (total=10)

Dendrogram of similar interfaces ?

matrix format

  
  QATCNA--QAHTTT----QATTLAHGTCDTRG   L       +-----------------------------1g2d_F    
                                           +-1 
  --KGDCRGQARGATNA----QA--ATHG----   L   +-2 +-----------------------------2i13_A    
                                         ! ! 
  RGDCECRGRG--DCHG----------------   L --3 +-----------------------------1f2i_J    
                                         ! 
  --------HTITSTNACTRGRG--DCNA----   L   +-----------------------------2drp_D

home
updated Thu Sep 12 14:30:59 2024