3A4K

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

Summary for 3A4K

• Entry DOI: 10.2210/pdb3a4k/pdb
• Related: 2E52
• Descriptor: Type-2 restriction enzyme HindIII, DNA (5'-D(*GP*CP*CP*A)-3'), DNA (5'-D(P*AP*GP*CP*TP*TP*GP*GP*C)-3'), ... (9 entities in total)
• Functional Keywords: type ii restriction enzyme hindiii(e.c.3.1.21.4)/dna, hydrolase-dna complex, endonuclease, hydrolase, nuclease, restriction system, hydrolase/dna
• Biological source: Haemophilus influenzae; More
• Total number of polymer chains: 14
• Total formula weight: 163083.14

Authors

Watanabe, N.,Sato, C.,Takasaki, Y.,Tanaka, I. (deposition date: 2009-07-09, release date: 2009-10-20, Last modification date: 2023-11-01)

Primary citation

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

PubMed 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.

PubMed: 19966419
DOI: 10.1107/S0907444909041134

Experimental method

X-RAY DIFFRACTION (2.17 Å)