3EY1

A Conformational Transition in the Structure of a 2'-Thiomethyl-Modified DNA Visualized at High Resolution

Summary for 3EY1

• Entry DOI: 10.2210/pdb3ey1/pdb
• Related: 3EY2 3EY3
• Descriptor: Ribonuclease H, 5'-D(*CP*GP*CP*GP*AP*AP*(USM)P*(USM)P*CP*GP*CP*G)-3', GLYCEROL, ... (4 entities in total)
• Functional Keywords: rnase h-dna complex, protein-dna complex, endonuclease, 2'-thiomethyl uridine ribonucleic acid, hydrolase, magnesium, manganese, metal-binding, nuclease, hydrolase-dna complex, hydrolase/dna
• Biological source: Bacillus halodurans; More
• Cellular location: Cytoplasm : Q9KEI9
• Total number of polymer chains: 2
• Total formula weight: 19919.81

Authors

Egli, M.,Pallan, P.S. (deposition date: 2008-10-17, release date: 2009-04-28, Last modification date: 2023-09-06)

Primary citation

Pallan, P.S.,Prakash, T.P.,Li, F.,Eoff, R.L.,Manoharan, M.,Egli, M.
A conformational transition in the structure of a 2'-thiomethyl-modified DNA visualized at high resolution.
Chem.Commun.(Camb.), 15:2017-2019, 2009

PubMed Abstract: Crystal structures of A-form and B-form DNA duplexes containing 2'-S-methyl-uridines reveal that the modified residues adopt a RNA-like C3'-endo pucker, illustrating that the replacement of electronegative oxygen at the 2'-carbon of RNA by sulfur does not appear to fundamentally alter the conformational preference of the sugar in the oligonucleotide context and sterics trump stereoelectronics.

PubMed: 19333476
DOI: 10.1039/b822781k

Experimental method

X-RAY DIFFRACTION (1.6 Å)