3D-footprint cannot reliably estimate the specificity of 'Nucleic acid-binding proteins', as they bind to single-stranded DNA and thus accumulate more base contacts.

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updated Wed Jul 30 02:00:28 2025

structure name	CRYSTAL STRUCTURE OF N-TERMINAL ACETYLATED SIR3 BAH DOMAIN D205N MUTANT IN COMPLEX WITH YEAST NUCLEOSOME CORE PARTICLE
reference	Yang et al. Nat.Struct.Mol.Biol. 20 1116 2013
source	SACCHAROMYCES CEREVISIAE
experiment	X-ray (resolution=3.20, R-factor=?)
structural superfamily	Histone-fold;lambda repressor-like DNA-binding domains;p53-like transcription factors;Nucleic acid-binding proteins;P-loop containing nucleoside triphosphate hydrolases;
reference complex	5o9g_F 6ftx_B 6r8y_H 6x0n_f 7e9c_A 7e9c_D 7e9c_G 7nkx_f 7u0g_M 7vdt_B 7xcr_F 7xzx_N 7xzz_N 8xgc_4
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 4kud_A interface=3,28,46, phRykpgtvalreirrfqkstellirkLpfqrlvreiaqdfktdlRfqssaigalqesveaylvslfedtnlaaihakrvtiqkkdiklarrlrge > 4kud_B interface=31, akrhrkilrdniqgitkpairrlarrggvkRisgliyeevravlksflesvirdsvtytehakrktvtsldvvyalkrqgrtlygfgg > 4kud_C interface= qsrsakagltfpvgrvhrllrrgnyaqrigSgapvyltavleylaaeilelagnaardnkktriiprhlqlairnddelnkllgnvtiaqggvlpnihqnllp > 4kud_D interface= ketyssyiykvlkqthpdtgisqksmsilnSfvndiferiateasklaaynkkstisareiqtavrlilpgelakhavsegtravtkyssstq > 4kud_E interface=5,30,48, kkphRykpgtvalreirrfqkstellirkLpfqrlvreiaqdfktdlRfqssaigalqesveaylvslfedtnlaaihakrvtiqkkdiklarrlrge > 4kud_F interface=20, ggakrhrkilrdniqgitkPairrlarrggvkrisgliyeevravlksflesvirdsvtytehakrktvtsldvvyalkrqgrtlygfgg > 4kud_G interface=64, sqsrsakagltfpvgrvhrllrrgnyaqrigsgapvyltavleylaaeilelagnaardnkktRiiprhlqlairnddelnkllgnvtiaqggvlpnihqnllpk > 4kud_H interface= rketyssyiykvlkqthpdtgisqksmsilnsfvndiferiateasklaaynkkstisareiqTavrlilpgelakhavsegtravtkyssstq