BMRB Entry 18975

Name: Unmodified Helix 69
Published: 2014-01-02

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PDB ID: 2meq
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR18975
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title: Unmodified Helix 69 PubMed: 24371282

Deposition date: 2013-01-25 Original release date: 2014-01-02

Authors: JIANG, JUN; ADURI, RAVIPRASAD; CHOW, CHRISTINE; SANTALUCIA, JOHN

Citation: Jiang, Jun; Aduri, Raviprasad; Chow, Christine; Santalucia, John. "Structure modulation of helix 69 from Escherichia coli 23S ribosomal RNA by pseudouridylations." Nucleic Acids Res. ., .-. (2013).

Assembly members:
RNA, polymer, 19 residues, 6077.715 Da.

Natural source: Common Name: E. coli Taxonomy ID: 562 Superkingdom: Bacteria Kingdom: not available Genus/species: Escherichia coli

Experimental source: Production method: enzymatic semisynthesis

Entity Sequences (FASTA):
RNA: GGCCGUAACUAUAACGGUC

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	128
1H chemical shifts	160

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	RNA	1

Entities:

Entity 1, RNA 19 residues - 6077.715 Da.

1

G

C

G

U

A

C

U

2

A

U

A

C

G

U

C

Samples:

sample_1: RNA 1.0 mM; Potassium Phosphate 10 mM; Potassium Chloride 50 mM; EDTA 0.1 mM; D20 100%

sample_2: RNA 1.0 mM; Potassium Phosphate 10 mM; Potassium Chloride 50 mM; EDTA 0.1 mM; D20 90%; H2O 10%

sample_3: RNA, [U-100% 13C; U-100% 15N], 1.0 mM; Potassium Phosphate 10 mM; Potassium Chloride 50 mM; EDTA 0.1 mM; D20 100%

sample_conditions_1: ionic strength: 70 mM; pH: 7.3; pressure: 1 atm; temperature: 298.2 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-13C NATURAL ABUNDANCE HMQC	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D DQF-COSY	sample_1	isotropic	sample_conditions_1
3D 1H-1H-1H TOCSY-NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-31P HETCOR	sample_1	isotropic	sample_conditions_1
1D 31P	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_2	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_3	isotropic	sample_conditions_1
3D 1H-13C-1H HCCH-COSY	sample_3	isotropic	sample_conditions_1
3D 1H-13C-1H HCCH-TOCSY	sample_3	isotropic	sample_conditions_1
3D 1H-13C-13C HCCH-TOCSY	sample_3	isotropic	sample_conditions_1
3D 1H-1H-13C NOESY-HMQC	sample_3	isotropic	sample_conditions_1

Software:

SPARKY, Goddard - chemical shift assignment, data analysis

CNS v1.2, Brunger, Adams, Clore, Gros, Nilges and Read - refinement, structure solution

TOPSPIN, Bruker Biospin - collection, processing

NMR spectrometers:

Bruker Avance 700 MHz
Varian Mercury 400 MHz