1gdt_A : 3D-footprint complex

structure name	CRYSTAL STRUCTURE OF A SITE-SPECIFIC RECOMBINASE, GAMMA-DELTA RESOLVASE COMPLEXED WITH A 34 BP CLEAVAGE SITE (PROTEIN GAMMA DELTA RESOLVASE)
reference	Steitz et al. 'Cell(Cambridge,Mass.)' 82 193 1995
source	Escherichia coli
experiment	X-ray (resolution=3.00, R-factor=0.235)
structural superfamily	Resolvase-like;Homeodomain-like;
sequence family	Resolvase, N terminal domain; Helixturnhelix domain of resolvase;
multimeric complexes	1gdt_AB
redundant complexes	1zr2_A 1zr4_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 1gdt_A interface=122,125,126,130,140,142,171,172,173,174,176,177, mrlfgyarvstsqqsldiqvralkdagvkanriftdkasgsssdrkgldllrmkveegdvilvkkldrlgrdtadmiqlikefdaqgvsirfiddgistdgemgkmvvtilsavaqaerqrIleRTnegRqeamakgvvFgRkrkidrdavlnmwqqglgashisktmniARSTvYKvinesn
interface signature	IRTRFRARSTYK

Estimated binding specificities ?

readout + contact

# IC=13.829 IC/col=0.864 n_of_columns=16

specificity:

A |   2   0   2  24   0   2  78   3  83  24  12   2   3  87   2  87
C |   2   0   4  24  94   2   4   0   4  24   1   3   0   5   0   3
G |   3  96   2  24   0  88   8   2   4  24   2   2  73   2   2   4
T |  89   0  88  24   2   4   6  91   5  24  81  89  20   2  92   2

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: PAP1
TATCCAACC	PubMed	1gdt_A(4.69e-03), 2gm4_B(3.64e-03)

Dendrogram of similar interfaces ?

matrix format

  
  IT--RTTTRAFTRA--ACRGSGTC--YTKT   L              +-------1gdt_A    
                                              +---1 
  IT----------RTPAAGLASTTGLT--KA   L   +------2   +-------4m6f_A    
                                       !      ! 
  --LG--------------------------   L --3      +-----------5cy1_B    
                                       ! 
  ------QT----------------------   L   +------------------2r0q_E

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updated Tue Dec 19 05:40:00 2023