1rio_A : 3D-footprint complex

structure name	STRUCTURE OF BACTERIOPHAGE LAMBDA CI-NTD IN COMPLEX WITH SIGMA- REGION4 OF THERMUS AQUATICUS BOUND TO DNA (REPRESSOR PROTEIN CI)
reference	Hochschild et al. Mol.Cell 13 45 2004
source	ENTEROBACTERIA PHAGE LAMBDA
experiment	X-ray (resolution=2.30, R-factor=0.218)
structural superfamily	lambda repressor-like DNA-binding domains;
sequence family	Helixturnhelix;
multimeric complexes	1rio_ABH 5i2d_CDFGH 5i2d_NOQRS
redundant complexes	1ku7_A 5i2d
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 1rio_A interface=3,4,44,45,55, stKKkpltqeqledarrlkaiyekkknelglsqesvadkmgmgQSgvgalfngiNalnaynaallakilkvsveefspsiareiyemyeavhhhhhh
interface signature	KKQSN

Estimated binding specificities ?

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# IC=8.044 IC/col=0.894 n_of_columns=9

specificity:

A |   0   0   0   0   9   9  24   0  69
C |   0  96   0   0  11   9  24   0   9
G |  96   0  96  96   9  69  24   0   9
T |   0   0   0   0  67   9  24  96   9

scan!

Dendrogram of similar interfaces ?

matrix format

  
  KGKG------QASG----------NG   L              +1rio_A    
                                   +----------3 
  KGKG--ET--QASG----------NG   L   !          +1lmb_4    
                                   ! 
  ----QT--STNTVTATSTQTRTETTT   L   !            +2r1j_L    
                                 --6          +-1 
  ------ATATTTPTTTNT--------   L   !     +----2 +6fix_D    
                                   !     !    ! 
  ------RTTT--AT--STRG----TT   L   !   +-4    +6chv_D    
                                   !   ! ! 
  ------AT--QAAT--SA--------       +---5 +-----4z5h_A    
                                       ! 
  ----------SCATRTNCQT----HT   L       +-------4jcy_A

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updated Sat Jan 10 04:55:43 2026