5ui5_I : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF AQUIFEX AEOLICUS SIGMAN BOUND TO PROMOTER DNA (RNA polymerase sigma factor RpoN)
reference	Rajashankar et al. 'Proc. 114 E1805 2017
source	Aquifex aeolicus (strain VF5) / Aquifex aeolicus (strain VF5)
experiment	X-ray (resolution=3.40, R-factor=0.291)
structural superfamily	"Winged helix" DNA-binding domain;Sigma3 and sigma4 domains of RNA polymerase sigma factors;
sequence family	Sigma54, DNA binding domain; Sigma54 factor, core binding domain 572;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5ui5_I interface=217,227,228,231,232,296,297,298,312, eleelqqniklelegkeqelalellnylnekgflsksveeisdvlrcsveelekvrqkvlrleplgvcskdvweflelqieeiypeeeeilkkalrdlkrgkklkpeikgklsrlrlfpsaekvytfakvdaiieeengeffiylyedfididlneeywelyknlqkelkeaferyesirkvldirrrnlrkvlekiverqkdfltgkgslkpltlRevsseigihEStlSRivnskyvktpvgtyslrtffvresaegltqgelmklikeiverkpysdqeianilkekgfkvaRRTvakyremlgipssRerri
interface signature	RESSRRRTR

Estimated binding specificities ?

readout + contact

# IC=10.907 IC/col=0.727 n_of_columns=15

specificity:

A |   0   0   0   0  96  24  24  24  24  56  13   8   0   5  76
C |   0   0   0  82   0  24  24  24  24  13   0   4   0   0   8
G |   0  96  96  14   0  24  24  24  24  13  82  13   0  87   8
T |  96   0   0   0   0  24  24  24  24  14   1  71  96   4   4

scan!

Dendrogram of similar interfaces ?

matrix format

  
  --------------------RAETSCSTRT--RGRGTT--RT   L          +-----------------------5ui5_I    
                                                       +--1 
  ------------------------------DTRGRCTTKTRT   L     +-2  +-----------------------2o9l_A    
                                                     ! ! 
  --------------YGRG------------------------       +-3 +--------------------------4wcg_A    
                                                   ! ! 
  ------------RCYG--KT----------------------     --4 +----------------------------2acj_B    
                                                   ! 
  ETNTSCRGHCRT------------------------------       +----------------------------5d4s_B

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updated Tue Dec 19 11:24:46 2023