1h9t_B : 3D-footprint complex

structure name	FADR, FATTY ACID RESPONSIVE TRANSCRIPTION FACTOR FROM E. COLI IN COMPLEX WITH FADB OPERATOR (FATTY ACID METABOLISM REGULATOR PROTEIN)
reference	Van Aalten et al.
source	ESCHERICHIA COLI
experiment	X-ray (resolution=3.25, R-factor=0.265)
structural superfamily	Fatty acid responsive transcription factor FadR, C-terminal domain;"Winged helix" DNA-binding domain;
sequence family	FadR Cterminal domain; Bacterial regulatory proteins, gntR family;
multimeric complexes	1h9t_AB 1hw2_AB
redundant complexes	1hw2_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 1h9t_B interface=31,40,41,42,45,46,61, aqspagfaeeyiiesiwnnrfppgtilpaeRelseligvTRTtlREvlqrlardgwltiqHgkptkvnnfwetsglniletlarldhesvpqlidnllsvrtnistifirtafrqhpdkaqevlatanevadhadafaeldynifrglafasgnpiyglilngmkglytrigrhyfanpearslalgfyhklsalcsegahdqvyetvrryghesgeiwhrmqknl
interface signature	RTRTREH

Estimated binding specificities ?

contact

# IC=4.231 IC/col=0.705 n_of_columns=6

specificity:

A |  12   0   0  12  24   0
C |  24   0   0  24  24  96
G |  12  96  96  24  24   0
T |  48   0   0  36  24   0

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: FADR
ATCTGGTACGACCAGAT	PubMed	1h9t_B(1.91e-03), 1h9t_AB(2.93e-13), 1hw2_AB(2.86e-12), ... (total=4)
TGGTCTTACCA	PubMed	1h9t_AB(6.21e-11), 1hw2_AB(5.16e-10), 1hw2_B(5.20e-03)
TACCGACCGNTNGGTN	PubMed	1hw2_AB(9.89e-03)

Dendrogram of similar interfaces ?

matrix format

  
  --------RG--TGRGTG--RTET----HA--   L                           +--1h9t_B    
                                           +---------------------2 
  ------EGRG--TTRGTTTTRTET----HA--   L   +-5                     +--4p9u_F    
                                         ! ! 
  --------SGQG--YCNC--------------       ! +------------------------2ve9_C    
                                         ! 
  ------------------------YG------     --6                        +-2heo_D    
                                         !                 +------1 
  ----------------TTHT--KG--RC----   L   !         +-------3      +-7b0c_A    
                                         !         !       ! 
  RGRTKG--------------------------   L   +---------4       +--------6lui_A    
                                                   ! 
  --------TC--STKTPTTTFT--------RT                 +----------------4ass_H

home
updated Tue Dec 19 05:41:55 2023