1R3G image
Deposition Date 2003-10-01
Release Date 2003-10-21
Last Version Date 2024-02-14
Entry Detail
PDB ID:
1R3G
Keywords:
DNA
Title:
1.16A X-ray structure of the synthetic DNA fragment with the incorporated 2'-O-[(2-Guanidinium)ethyl]-5-methyluridine residues
Biological Source:
Source Organism:
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
1.16 Å
R-Value Free:
0.17
R-Value Work:
0.13
R-Value Observed:
0.13
Space Group:
P 21 21 21
1R3G validation report
Macromolecular Entities
Polymer Type:polydeoxyribonucleotide
Molecule:5'-D(*GP*CP*GP*TP*AP*(GMU)P*AP*CP*GP*C)-3')
Chain IDs:A, B
Chain Length:10
Number of Molecules:2
Biological Source:
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
GMU A DU ?
Ligand Molecules
MG
Primary Citation
2'-O-[2-(Guanidinium)ethyl]-Modified Oligonucleotides: Stabilizing Effect on Duplex and Triplex Structures.
Org.Lett. 6 1971 1974 (2004)
PMID: 15176796 DOI: 10.1021/ol0493249

Abstact

[structure: see text] Oligonucleotides with a novel 2'-O-[2-(guanidinium)ethyl] (2'-O-GE) modification have been synthesized using a novel protecting group strategy for the guanidinium group. This modification enhances the binding affinity of oligonucleotides to RNA as well as duplex DNA (DeltaT(m) 3.2 degrees C per modification). The 2'-O-GE modified oligonucleotides exhibited exceptional resistance to nuclease degradation. The crystal structure of a palindromic duplex formed by a DNA oligonucleotide with a single 2'-O-GE modification was solved at 1.16 A resolution.

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Primary Citation of related structures
1R3G