BMRB Entry 17573

Name: Conformation Effects of Base Modification on the Anticodon Stem-loop of Bacillus subtilis tRNATYR
Published: 2011-08-02

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PDB ID: 2lbr
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR17573
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Nicholas Rego and David Koes
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Conformation Effects of Base Modification on the Anticodon Stem-loop of Bacillus subtilis tRNATYR

Deposition date:

2011-04-05

Original release date:

2011-08-02

Authors:

Denmon, Andria; Wang, Jiachen; Nikonowicz, Edward

Citation:

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).
PubMed: 21782828

Assembly members:

Assembly members:
coi6y, polymer, 17 residues, 417.358 Da.

Natural source:

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

Experimental source:

Experimental source: Production method: enzymatic semisynthesis Host organism: cell free Vector: n/a

Entity Sequences (FASTA):

Entity Sequences (FASTA):
coi6y: GGGGACUGUAXAXCCCC

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	38
1H chemical shifts	75

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	coi6y	1

Entities:

Entity 1, coi6y 17 residues - 417.358 Da.

1

G

A

C

U

G

U

A

2

6IA

A

PSU

C

Samples:

sample_1: i6A,PSU-ASL 2.0 mM; potassium chloride 10 mM; EDTA 0.02 mM; potassium phosphate 10 mM; D2O 100%

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

Experiments:

Name	Sample	Sample state	Sample conditions
Natural abundance 2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1

Software:

FELIX, Accelrys Software Inc. - data analysis, processing

InsightII, Accelrys Software Inc. - data analysis

X-PLOR NIH, Schwieters, Kuszewski, Tjandra and Clore - refinement, structure calculation

VNMRJ, Varian - collection

NMR spectrometers:

Varian INOVA 500 MHz
Varian INOVA 600 MHz