ISDA

Deposition Date 2006-12-18

Release Date 2007-12-18

Last Version Date 2024-03-13

Entry Detail

PDB ID:

2E52

Keywords:

hydrolase/DNA

Title:

Crystal structural analysis of HindIII restriction endonuclease in complex with cognate DNA at 2.0 angstrom resolution

Biological Source:

Source Organism:

Haemophilus influenzae (Taxon ID: 71421)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.00 Å

R-Value Free:

0.21

R-Value Work:

0.17

R-Value Observed:

0.17

Space Group:

P 1 21 1

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Type II restriction enzyme HindIII
Gene (Uniprot):hindIIIR
Chain IDs:A, B (auth: C), C (auth: B), D
Chain Length:300
Number of Molecules:4
Biological Source:Haemophilus influenzae

UniProt ID:P43870 Pfam ID:PF09518 EC:3.1.21.4

Ligand Molecules

ACT

GOL

Primary Citation

Structures of restriction endonuclease HindIII in complex with its cognate DNA and divalent cations

Watanabe, N, Takasaki, Y, Sato, C, Ando, S, Tanaka, I.Show

Acta Crystallogr.,Sect.D 65 1326 1333 (2009)

PMID: 19966419 DOI: 10.1107/S0907444909041134

Abstact

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.

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Primary Citation of related structures