PDBsum entry 2n9h

DNA

PDB id: 2n9h

Contents

DNA/RNA

PDB id:

2n9h

Name:

DNA

Title:

Glucose as a nuclease mimic in DNA

Structure:

DNA (5'-d( Gp Ap Tp Gp Ap Cp Tp Gp Cp Tp Ap G)-3'). Chain: a. Engineered: yes. DNA (5'-d( Cp Tp Ap Gp Cp (Gl6)p Gp Tp Cp Ap Tp C)-3'). Chain: b. Engineered: yes

Source:

Synthetic: yes. Synthetic construct. Organism_taxid: 32630. Organism_taxid: 32630

NMR struc:

10 models

Authors:

I.Gomez-Pinto,E.Vengut-Climent,R.Lucas,A.Avino,R.Eritja,C.Gonzalez- Ibanez,J.Morales,A.Muro,P.Penalver,C.Fonseca-Guerra,M.Bickelhaupt

Key ref:

E.Vengut-Climent et al. (2016). Glucose-Nucleobase Pseudo Base Pairs: Biomolecular Interactions within DNA. Angew Chem Int Ed Engl, 55, 8643-8647. PubMed id: 27328804 DOI: 10.1002/anie.201603510

Date:

25-Nov-15 Release date: 31-Aug-16

DNA/RNA chains

G-A-T-G-A-C-T-G-C-T-A-G 12 bases

C-T-A-G-C-4JA-G-T-C-A-T-C 12 bases

DOI no: 10.1002/anie.201603510

Angew Chem Int Ed Engl 55:8643-8647 (2016)

PubMed id: 27328804

Glucose-Nucleobase Pseudo Base Pairs: Biomolecular Interactions within DNA.

E.Vengut-Climent, I.Gómez-Pinto, R.Lucas, P.Peñalver, A.Aviñó, C.Fonseca Guerra, F.M.Bickelhaupt, R.Eritja, C.González, J.C.Morales.

ABSTRACT

Noncovalent forces rule the interactions between biomolecules. Inspired by a biomolecular interaction found in aminoglycoside-RNA recognition, glucose-nucleobase pairs have been examined. Deoxyoligonucleotides with a 6-deoxyglucose insertion are able to hybridize with their complementary strand, thus exhibiting a preference for purine nucleobases. Although the resulting double helices are less stable than natural ones, they present only minor local distortions. 6-Deoxyglucose stays fully integrated in the double helix and its OH groups form two hydrogen bonds with the opposing guanine. This 6-deoxyglucose-guanine pair closely resembles a purine-pyrimidine geometry. Quantum chemical calculations indicate that glucose-purine pairs are as stable as a natural T-A pair.