BMRB Entry 18950

Title:
THE SOLUTION STRUCTURE OF 3',5'-LINKED 2'-O-(2-METHOXYETHYL)-RNA DUPLEX
Deposition date:
2013-01-15
Original release date:
2013-11-26
Authors:
Plevnik, Miha; Cevec, Mirko; Plavec, Janez
Citation:

Citation: Plevnik, Miha; Cevec, Mirko; Plavec, Janez. "NMR structure of 2'-O-(2-methoxyethyl) modified and C5-methylated RNA dodecamer duplex."  Biochimie 95, 2385-2391 (2013).
PubMed: 24012551

Assembly members:

Assembly members:
5'-R(*(C5L)P*(G48)P*(C5L)P*(G48)P*(A44)P*(A44)P*(T39)P*(T39)P*(C5L)P*(G48)P*(C5L))-D(P*(DG))-3', polymer, 12 residues, 1889.457 Da.

Natural source:

Natural source:   Common Name: not available   Taxonomy ID: not available   Superkingdom: not available   Kingdom: not available   Genus/species: not available not available

Experimental source:

Experimental source:   Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
5'-R(*(C5L)P*(G48)P*(C5L)P*(G48)P*(A44)P*(A44)P*(T39)P*(T39)P*(C5L)P*(G48)P*(C5L))-D(P*(DG))-3': XXXXXXXXXXXG

Data sets:
Data typeCount
1H chemical shifts173

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1RNA (5'-R(P*(G48)P*(A44)P*(A44)P*(T39)P*(T39))-3')_11
2RNA (5'-R(P*(G48)P*(A44)P*(A44)P*(T39)P*(T39))-3')_21

Entities:

Entity 1, RNA (5'-R(P*(G48)P*(A44)P*(A44)P*(T39)P*(T39))-3')_1 12 residues - 1889.457 Da.

1   C5LG48C5LG48A44A44T39T39C5LG48
2   C5LDG

Samples:

sample_1: 5'-R(*(C5L)P*(G48)P*(C5L)P*(G48)P*(A44)P*(A44)P*(T39)P*(T39)P*(C5L)P*(G48)P*(C5L))-D(P*(DG))-3' 2.5 mM; potassium chloride 100 mM

sample_2: 5'-R(*(C5L)P*(G48)P*(C5L)P*(G48)P*(A44)P*(A44)P*(T39)P*(T39)P*(C5L)P*(G48)P*(C5L))-D(P*(DG))-3' 2.5 mM; potassium chloride 100 mM

sample_conditions_2: ionic strength: 100 mM; pH: 7.0; pressure: 1 atm; temperature: 303 K

sample_conditions_1: ionic strength: 100 mM; pH: 7.0; pressure: 1 atm; temperature: 278 K

Experiments:

NameSampleSample stateSample conditions
2D NOESYsample_1isotropicsample_conditions_1
2D NOESYsample_2isotropicsample_conditions_2
2D DQF-COSYsample_2isotropicsample_conditions_2

Software:

VNMR v6.1B, Varian - collection, processing

FELIX v2000, Accelrys Software Inc. - processing

AMBER v7, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollman - refinement, structure solution

NMR spectrometers:

  • Varian Unity Inova 600 MHz