3ey1

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

Structural highlights

3ey1 is a 2 chain structure with sequence from Alkalihalobacillus halodurans. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.6Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

RNH1_HALH5 Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.^[1]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

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.

A conformational transition in the structure of a 2'-thiomethyl-modified DNA visualized at high resolution.,Pallan PS, Prakash TP, Li F, Eoff RL, Manoharan M, Egli M Chem Commun (Camb). 2009 Apr 21;(15):2017-9. Epub 2009 Feb 26. PMID:19333476^[2]

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

References

↑ Nowotny M, Gaidamakov SA, Crouch RJ, Yang W. Crystal structures of RNase H bound to an RNA/DNA hybrid: substrate specificity and metal-dependent catalysis. Cell. 2005 Jul 1;121(7):1005-16. PMID:15989951 doi:http://dx.doi.org/10.1016/j.cell.2005.04.024
↑ Pallan PS, Prakash TP, Li F, Eoff RL, Manoharan M, Egli M. A conformational transition in the structure of a 2'-thiomethyl-modified DNA visualized at high resolution. Chem Commun (Camb). 2009 Apr 21;(15):2017-9. Epub 2009 Feb 26. PMID:19333476 doi:10.1039/b822781k

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OCA

[1] Nowotny M, Gaidamakov SA, Crouch RJ, Yang W. Crystal structures of RNase H bound to an RNA/DNA hybrid: substrate specificity and metal-dependent catalysis. Cell. 2005 Jul 1;121(7):1005-16. PMID:15989951 doi:http://dx.doi.org/10.1016/j.cell.2005.04.024

[2] Pallan PS, Prakash TP, Li F, Eoff RL, Manoharan M, Egli M. A conformational transition in the structure of a 2'-thiomethyl-modified DNA visualized at high resolution. Chem Commun (Camb). 2009 Apr 21;(15):2017-9. Epub 2009 Feb 26. PMID:19333476 doi:10.1039/b822781k

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