5bpd_A : 3D-footprint complex

structure name	STRUCTURE OF TRMBL2, AN ARCHAEAL CHROMATIN PROTEIN, SHOWS A NOVEL MODE OF DNA BINDING. (TRMBL2)
reference	Diederichs et al. J.Mol.Biol. 427 3216 2015
source	PYROCOCCUS FURIOSUS
experiment	X-ray (resolution=2.40, R-factor=0.236)
structural superfamily	"Winged helix" DNA-binding domain;Phospholipase D/nuclease;
sequence family	Sugarspecific transcriptional regulator Trm;
multimeric complexes	5box_ABCD 5bpd_ABCD 5bpi_ABCD
redundant complexes	5box_A 5bpi_C
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 5bpd_A interface=18,44,46,47,49,50, skdrmvellqehfelnlYearayvalvafgvltpaelasvsevPaPRtYDvlrslekkgfamtqpgktnkyrpvhpanvlekfiqdwqervkeeleakkkakeellelmaplietevpkygvervwvvrgiknstlktkemleeaqneilladdgfiavnleddiikavdrgvktkilltknllprlkaskiidyakegklelraldkfdlpmlicdeevffaledlaaryfnyetqvwikdhrvvalfkekfneywekaekv
interface signature	YPPRYD

Estimated binding specificities ?

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# IC=2.458 IC/col=0.615 n_of_columns=4

specificity:

A |  56   9  78   2
C |  13   9   6   2
G |  14   9   6   2
T |  13  69   6  90

scan!

Dendrogram of similar interfaces ?

matrix format

  
  ----STQASGATSTQT--------QA--   L         +--------------------4on0_B    
                                           ! 
  ----------------YGRG--------          +--3                    +4wcg_A    
                                        !  !                  +-1 
  VT--HTPTSA--TTKG----------YT   L      !  +------------------2 +9c4c_G    
                                     +--4                     ! 
  --------------RCYG--KT------       !  !                     +-2acj_B    
                                   --5  ! 
  ETNTSCRGHC--RT--------QA----   L   !  +-----------------------4h0e_A    
                                     ! 
  ------SANCTGTTPT--------RT--   L   +--------------------------5hlg_E

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updated Mon Jun 29 19:27:26 2026