4GZN

Mouse ZFP57 zinc fingers in complex with methylated DNA

Summary for 4GZN

• Entry DOI: 10.2210/pdb4gzn/pdb
• Descriptor: DNA (5'-D(*TP*AP*TP*TP*GP*CP*(5CM)P*GP*CP*AP*G)-3'), DNA (5'-D(*AP*CP*TP*GP*(5CM)P*GP*GP*CP*AP*AP*T)-3'), Zinc finger protein 57, ... (8 entities in total)
• Functional Keywords: zinc finger, transcription-dna complex, transcription/dna
• Biological source: Mus musculus (mouse); More
• Cellular location: Nucleus: Q8C6P8
• Total number of polymer chains: 3
• Total formula weight: 14254.78

Authors

Liu, Y.,Zhang, X.,Cheng, X. (deposition date: 2012-09-06, release date: 2012-10-17, Last modification date: 2024-02-28)

Primary citation

Liu, Y.,Toh, H.,Sasaki, H.,Zhang, X.,Cheng, X.
An atomic model of Zfp57 recognition of CpG methylation within a specific DNA sequence.
Genes Dev., 26:2374-2379, 2012

PubMed Abstract: Zinc finger transcription factor Zfp57 recognizes the methylated CpG within the TGCCGC element. We determined the structure of the DNA-binding domain of Zfp57, consisting of two adjacent zinc fingers, in complex with fully methylated DNA at 1.0 Å resolution. The first zinc finger contacts the 5' half (TGC), and the second recognizes the 3' half (CGC) of the recognition sequence. Zfp57 recognizes the two 5-methylcytosines (5mCs) asymmetrically: One involves hydrophobic interactions with Arg178, which also interacts with the neighboring 3' guanine and forms a 5mC-Arg-G interaction, while the other involves a layer of ordered water molecules. Two point mutations in patients with transient neonatal diabetes abolish DNA-binding activity. Zfp57 has reduced binding affinity for unmodified DNA and the oxidative products of 5mC.

PubMed: 23059534
DOI: 10.1101/gad.202200.112

Experimental method

X-RAY DIFFRACTION (0.99 Å)