5SWM

BACILLUS HALODURANS RNASE H MUTANT D132N IN COMPLEX WITH 12-MER FRNA/DNA HYBRID

Summary for 5SWM

• Entry DOI: 10.2210/pdb5swm/pdb
• Descriptor: Ribonuclease H, RNA (12-MER), DNA (12-MER), ... (8 entities in total)
• Functional Keywords: rnase h, rna/dna hybrid, hydrolase-rna-dna complex, hydrolase/rna/dna
• Biological source: Bacillus halodurans; More
• Total number of polymer chains: 4
• Total formula weight: 40479.10

Authors

Pallan, P.S.,Egli, M. (deposition date: 2016-08-08, release date: 2016-09-21, Last modification date: 2023-10-04)

Primary citation

Pallan, P.S.,Prakash, T.P.,de Leon, A.R.,Egli, M.
Limits of RNA 2'-OH Mimicry by Fluorine: Crystal Structure of Bacillus halodurans RNase H Bound to a 2'-FRNA:DNA Hybrid.
Biochemistry, 55:5321-5325, 2016

PubMed Abstract: RNase H1 cleaves the RNA strand of RNA:DNA hybrids. Replacement of RNA 2'-hydroxyls by fluorine (FRNA) is commonly used to stabilize aptamers and siRNAs. However, FRNA:DNA hybrids fail to elicit RNase H activity. The underlying reasons are unclear, as 2'-OH groups are not directly involved in cleavage. We determined the crystal structure of Bacillus halodurans RNase H bound to a FRNA:DNA hybrid. The structure points to dynamic (slippage of the FRNA:DNA hybrid relative to the enzyme), geometric (different curvatures of FRNA:DNA and RNA:DNA hybrids), and electronic reasons (Mg(2+) absent from the active site of the FRNA:DNA complex) for the loss of RNaseH activity.

PubMed: 27611889
DOI: 10.1021/acs.biochem.6b00849

Experimental method

X-RAY DIFFRACTION (1.5 Å)