BMRB Entry 17563

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

Click here to enlarge.

PDB ID: 2lbj
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR17563
MolProbity Validation Chart

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry

Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

Select model:

I am color blind

Download raw data. Direct link to this display. Help

Title:

Glycyl-tRNA(GCC) 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:
glycyl-tRNA, polymer, 17 residues, 5434.313 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):
glycyl-tRNA: GGGCCUUGCCAAGGUCC

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	90
1H chemical shifts	108

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	RNA (5'-R(GPGPGPCPCPUPUPGPCPCPAPAPGPGPUPCP*C)-3')	1

Entities:

Entity 1, RNA (5'-R(*GP*GP*GP*CP*CP*UP*UP*GP*CP*CP*AP*AP*GP*GP*UP*CP*C)-3') 17 residues - 5434.313 Da.

1

G

C

U

G

C

2

A

G

U

C

Samples:

sample_1: RNA, [U-98% 13C; U-98% 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 mM; 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 1H-13C NOESY	sample_1	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1
2D HCN	sample_1	isotropic	sample_conditions_1

Software:

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

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

NMR spectrometers:

Varian INOVA 500 MHz
Varian INOVA 600 MHz