2gzk_A : 3D-footprint complex

structure name	STRUCTURE OF A COMPLEX OF TANDEM HMG BOXES AND DNA (SEX-DETERMINING REGION ON Y HMGB1)
source	HOMO SAPIENS, RATTUS RATTUS
experiment	NMR
structural superfamily	HMG-box;
sequence family	HMG high mobility group box;
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 2gzk_A interface=7,10,12,13,20,32,36,74,76,78,81,91,96,97,100,116,120, vqdrvkRpmNaFIvwsrdqRrkmalenprmrNseiSkqlgyqwkmlteaekwpffqeaqklqamhrekypnykYrKgEtkKkfkdpnapkRppsaFFlfCseyrpkikgehpglsIgdvAkklgemwnntaaddkqpyekkaaklkekyekdiaayrak
interface signature	RNFIRNSYKEKRFFCIA

Estimated binding specificities ?

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# IC=13.631 IC/col=0.852 n_of_columns=16

specificity:

A |   0   0   9   0   0   0   0   0  24  24   5  65   0   0  24   4
C |   0  96   9   0   0   0   6   0  24  24   9   9   0  96  24  77
G |  96   0  64   0   0  96   4   0  24  24  73   9   0   0  24   9
T |   0   0  14  96  96   0  86  96  24  24   9  13  96   0  24   6

scan!

Related DNA sequences reported in the literature ?

site	source	matches (E-value)
term: HMG
AACAAAG	PubMed	2gzk_A(2.32e-04)
AACAAT	PubMed	2gzk_A(3.69e-04)
ATTGTT	PubMed	2gzk_A(3.69e-04)
GAACAAT	PubMed	2gzk_A(3.88e-03)

Dendrogram of similar interfaces ?

matrix format

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updated Tue Dec 17 22:45:37 2024