BMRB Entry 17517

Name: Pseudouridine_ASL_Tyr
Published: 2011-08-02

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PDB ID: 2la9
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR17517
MolProbity Validation Chart

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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title: Pseudouridine_ASL_Tyr PubMed: 21782828

Deposition date: 2011-03-09 Original release date: 2011-08-02

Authors: Denmon, Andria; Wang, Jiachen; Nikonowicz, Edward

Citation: Denmon, Andria; Wang, Jiachen; Nikonowicz, Edward. "Conformation effects of base modification on the anticodon stem-loop of Bacillus subtilis tRNA(Tyr)." J. Mol. Biol. 412, 285-303 (2011).

Assembly members:
tRNATYR, polymer, 17 residues, 324.183 Da.

Natural source: Common Name: B. subtilis Taxonomy ID: 1423 Superkingdom: Bacteria Kingdom: not available Genus/species: Bacillus subtilis

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):
tRNATYR: GGGGACUGUAAAXCCCC

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	35
1H chemical shifts	80
31P chemical shifts	16

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	tRNATYR	1

Entities:

Entity 1, tRNATYR 17 residues - 324.183 Da.

1

G

A

C

U

G

U

A

2

A

PSU

C

Samples:

sample_1: Pseudouridine_ASL_Tyr 2.0 mM; potassium chloride 10 mM; potassium phosphate 10 mM; EDTA 0.02 mM; H2O 90%; D2O 10%

sample_conditions_1: pH: 6.3; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D Natural Abundance HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 31P-1H	sample_1	isotropic	sample_conditions_1

Software:

X-PLOR NIH v2.19, Schwieters, Kuszewski, Tjandra and Clore - refinement

FELIX, Accelrys Software Inc. - chemical shift assignment, peak picking, processing

InsightII, Accelrys Software Inc. - data analysis

VNMR, Varian - collection

NMR spectrometers:

Varian INOVA 500 MHz