First time at Proteopedia? Click on the green links: they change the 3D image. Click and drag the molecules. Proteopedia is a 3D, interactive encyclopedia of proteins, RNA, DNA and other molecules. With a free user account, you can edit pages in Proteopedia. Visit the Main Page to learn more.

3e3y

From Proteopedia

Jump to: navigation, search


3e3y, resolution 2.13Å ()
Ligands: ,
Gene: hindIIR, HI0512 (Haemophilus influenzae)
Activity: Type II site-specific deoxyribonuclease, with EC number 3.1.21.4
Related: 1tx3, 2gij, 3e40, 3e41, 3e42, 3e43, 3e44, 3e45


Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml



Contents

Q138F HincII bound to GTTAAC and cocrystallized with 5 mM Ca2+

Publication Abstract from PubMed

Five new structures of the Q138F HincII enzyme bound to a total of three different DNA sequences and three different metal ions (Ca(2+), Mg(2+), and Mn(2+)) are presented. While previous structures were produced from soaking Ca(2+) into preformed Q138F HincII/DNA crystals, the new structures are derived from cocrystallization with Ca(2+), Mg(2+), or Mn(2+). The Mn(2)(+)-bound structure provides the first view of a product complex of Q138F HincII with cleaved DNA. Binding studies and a crystal structure show how Ca(2+) allows trapping of a Q138F HincII complex with noncognate DNA in a catalytically incompetent conformation. Many Q138F HincII/DNA structures show asymmetry, despite the binding of a symmetric substrate by a symmetric enzyme. The various complexes are fit into a model describing the different conformations of the DNA-bound enzyme and show how DNA conformational energetics determine DNA-cleavage rates by the Q138F HincII enzyme.

DNA distortion and specificity in a sequence-specific endonuclease., Babic AC, Little EJ, Manohar VM, Bitinaite J, Horton NC, J Mol Biol. 2008 Oct 31;383(1):186-204. Epub 2008 Aug 22. PMID:18762194

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

About this Structure

3e3y is a 4 chain structure with sequence from Haemophilus influenzae. Full crystallographic information is available from OCA.

See Also

Reference

  • Babic AC, Little EJ, Manohar VM, Bitinaite J, Horton NC. DNA distortion and specificity in a sequence-specific endonuclease. J Mol Biol. 2008 Oct 31;383(1):186-204. Epub 2008 Aug 22. PMID:18762194 doi:S0022-2836(08)01025-5

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools