SNAP output for PDB entry 3a4k [SNAP web server]

PDB-id

3a4k; SNAP-derived features in text and JSON formats; DNAproDB

Class

hydrolase-DNA

Method

X-ray (2.17 Å)

Summary

Crystal structural analysis of hindiii restriction endonuclease in complex with cognate DNA and divalent cations at 2.17 angstrom resolution

Reference

Watanabe N, Takasaki Y, Sato C, Ando S, Tanaka I (2009): "Structures of restriction endonuclease HindIII in complex with its cognate DNA and divalent cations." Acta Crystallogr.,Sect.D, 65, 1326-1333. doi: 10.1107/S0907444909041134.

Abstract

The three-dimensional crystal structures of HindIII bound to its cognate DNA with and without divalent cations were solved at 2.17 and 2.00 A resolution, respectively. HindIII forms a dimer. The structures showed that HindIII belongs to the EcoRI-like (alpha-class) subfamily of type II restriction endonucleases. The cognate DNA-complex structures revealed the specific DNA-recognition mechanism of HindIII by which it recognizes the palindromic sequence A/AGCTT. In the Mg(2+) ion-soaked structure the DNA was cleaved and two ions were bound at each active site, corresponding to the two-metal-ion mechanism.