4hc9_A : 3D-footprint complex

structure name	DNA BINDING BY GATA TRANSCRIPTION FACTOR-COMPLEX 3 (Trans-acting T-cell-specific transcription factor GATA-3)
reference	Bates et al. 'Cell 2 1197 2012
source	Homo sapiens
experiment	X-ray (resolution=1.60, R-factor=?)
structural superfamily	Glucocorticoid receptor-like DNA-binding domain;
sequence family	GATA zinc finger;
redundant complexes	4hc7_A 4hca_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 4hc9_A interface=12,13,15,25,29, recvncgatstPLwRrdgtghylcNacgLyhkmngqnrplikpkrrlsaarragtscancqtttttlwrrnangdpvcnacglyyklhninrpltmkkegiqtrn
interface signature	PLRNL

Estimated binding specificities ?

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# IC=3.142 IC/col=0.786 n_of_columns=4

specificity:

A |   0  13  96  13
C |   0  13   0  13
G |   0  54   0  13
T |  96  16   0  57

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: GATA
AGATAA	PubMed	4hc7_A(9.43e-07), 4hca_A(4.32e-05)
TTATCT	PubMed	4hc7_A(9.43e-07), 4hca_A(4.32e-05)
CGATA	PubMed	4hc7_A(3.54e-04), 4hca_A(2.91e-03)
GATAA	PubMed	4hc7_A(1.29e-07), 4hca_A(4.08e-06)
AGATA	PubMed	4hc7_A(3.54e-04), 4hca_A(2.91e-03)
AGATAG	PubMed	4hc7_A(1.12e-03), 4hca_A(1.02e-02)
TATAAA	PubMed	4hc7_A(1.18e-03), 4hca_A(1.09e-02)
TGATAA	PubMed	4hc9_A(3.59e-04), 4hc7_A(4.35e-11), 4hca_A(1.49e-08)
GACAAGATAA	PubMed	4hc7_A(7.15e-05), 4hca_A(7.88e-03)
GATAAG	PubMed	4hc7_A(9.43e-07), 4hca_A(4.32e-05)

Dendrogram of similar interfaces ?

matrix format

  
  PTLCRGNALA----------------   L   +-------------4hc9_A    
                                   ! 
  ----------TTLGRGNALA--LTRT   L --3           +-3dfx_B    
                                   !         +-1 
  ----------TTLARGNTLT--LT--   L   +---------2 +-2gat_A    
                                             ! 
  ------------LCRG--LAFTLTRG                 +---4gat_A

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updated Fri Sep 13 18:19:23 2024