SNAP output for PDB entry 3spl [SNAP web server]

PDB-id

3spl; SNAP-derived features in text and JSON formats; DNAproDB

Class

hydrolase-DNA

Method

X-ray (2.101 Å)

Summary

Crystal structure of aprataxin ortholog hnt3 in complex with DNA and amp

Reference

Gong Y, Zhu D, Ding J, Dou C, Ren X, Gu L, Jiang T, Wang D (2011): "Crystal structures of aprataxin ortholog Hnt3 reveal the mechanism for reversal of 5'-adenylated DNA." Nat.Struct.Mol.Biol., 18, 1297-1299. doi: 10.1038/nsmb.2145.

Abstract

Aprataxin is a DNA deadenylase that resolves DNA 5'-AMP termini and reverses abortive DNA ligation. The crystal structures of Schizosaccharomyces pombe aprataxin Hnt3 in its apo form and in complex to dsDNA and dsDNA-AMP reveal how Hnt3 recognizes and processes 5'-adenylated DNA in a structure-specific manner. The bound DNA adopts a 5'-flap conformation that facilitates 5'-AMP access to the active site, where AMP cleavage occurs by a canonical catalytic mechanism.