BMRB Entry 17565

Name: Unmodified Glycyl-tRNA(UCC) anticodon stem-loop from Bacillus subtilis
Published: 2012-04-04

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PDB ID: 2lbl
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR17565
MolProbity Validation Chart

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

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Title:

Unmodified Glycyl-tRNA(UCC) anticodon stem-loop from Bacillus subtilis

Deposition date:

2011-03-31

Original release date:

2012-04-04

Authors:

Chang, Andrew; Nikonowicz, Edward

Citation:

Citation: Chang, Andrew; Nikonowicz, Edward. "Structure solution of three glycyl-tRNA anticodon stem-loops" .

Assembly members:

Assembly members:
Unmodified Glycyl-tRNA(UCC) anticodon stem-loop, polymer, 17 residues, 5379.274 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: Bacillus subtilis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Unmodified Glycyl-tRNA(UCC) anticodon stem-loop: GGGACCUUCCAAGUCUC

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	82
1H chemical shifts	101

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Unmodified Glycyl-tRNA(UCC) anticodon stem-loop	1

Entities:

Entity 1, Unmodified Glycyl-tRNA(UCC) anticodon stem-loop 17 residues - 5379.274 Da.

1

G

A

C

U

C

2

A

G

U

C

U

C

Samples:

sample_1: RNA, [U-95% 13C; U-95% 15N], 0.02 – 0.04 mM; D2O 100%; KH2PO4 10 mM; K2HPO4 10 mM; KCl 10 mM; EDTA 0.2 mM

sample_2: RNA0.02 – 0.04 mM; D2O 100%; KH2PO4 10 mM; K2HPO4 10 mM; KCl 10 mM; EDTA 0.2 mM

sample_conditions_1: ionic strength: 10 M; pH: 6.2; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-1H COSY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_2	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_1	isotropic	sample_conditions_1
2D HCN	sample_1	isotropic	sample_conditions_1

Software:

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

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

NMR spectrometers:

Varian INOVA 500 MHz
Varian INOVA 600 MHz