BMRB Entry 52938

Name: NMR characterisation of the antibiotic resistance-mediating 32mer RNA from the 23S ribosomal RNA
Published: 2025-11-15

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR52938

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

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Title:

NMR characterisation of the antibiotic resistance-mediating 32mer RNA from the 23S ribosomal RNA

Deposition date:

2025-02-25

Original release date:

2025-11-15

Authors:

Muhs, Christina; Kemper, Lena; Richter, Christian; Lavore, Francesca; Weingarth, Markus; Wacker, Anna; Schwalbe, Harald

Citation:

Citation: Muhs, Christina; Kemper, Lena; Richter, Christian; Lavore, Francesca; Weingarth, Markus; Wacker, Anna; Schwalbe, Harald. "NMR characterisation of the antibiotic resistance-mediating 32mer RNA from the 23S ribosomal RNA" Biomol. NMR Assign. 19, 133-145 (2025).
PubMed: 40175819

Assembly members:

Assembly members:
entity_1, polymer, 32 residues, Formula weight is not available

Natural source:

Natural source: Common Name: Streptococcus pneumoniae Taxonomy ID: 1313 Superkingdom: Bacteria Kingdom: not available Genus/species: Streptococcus pneumoniae

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pSP64

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: GGCGACGGACGGAAAGACCC CUAUCCGUCGCC

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1
- assigned_chemical_shifts_2

Data type	Count
13C chemical shifts	234
15N chemical shifts	82
1H chemical shifts	284

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	unmethylated Erm-RNA	1

Entities:

Entity 1, unmethylated Erm-RNA 32 residues - Formula weight is not available

1

G

C

G

A

C

G

A

C

2

G

A

G

A

C

3

C

U

A

U

C

G

U

C

G

4

C

Samples:

sample_1: unmethylated Erm-RNA, [U-100% 13C; U-100% 15N], 460 uM; potassium chloride 50 mM; potassium phosphate 25 mM; DSS 0.3 uM

sample_2: unmethylated Erm-RNA, [U-13C; U-15N]-Ade, 400 uM; potassium chloride 50 mM; potassium phosphate 25 mM; DSS 0.3 uM

sample_3: unmethylated Erm-RNA 121 uM; potassium chloride 50 mM; potassium phosphate 25 mM; DSS 0.3 uM

sample_conditions_1: ionic strength: 75 mM; pH: 6.2; temperature: 298 K

sample_conditions_2: ionic strength: 75 mM; pH: 6.2; temperature: 278 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-15N TROSY	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-1H TOCSY	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_2
3D HCCH-COSY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_2	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-15N CPMG NOESY	sample_1	isotropic	sample_conditions_2
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
3D (H)CNC-TROSY	sample_1	isotropic	sample_conditions_1
2D HCCNH-TOCSY	sample_1	isotropic	sample_conditions_1
2D HNN-COSY	sample_1	isotropic	sample_conditions_2
2D 1H-1H NOESY	sample_3	isotropic	sample_conditions_2
2D 1H-15N TROSY	sample_1	isotropic	sample_conditions_2

Software:

TOPSPIN - processing

NMRFAM-SPARKY - chemical shift assignment

NMR spectrometers:

Bruker AVANCE III 600 MHz
Bruker AVANCE III 700 MHz
Bruker AVANCE III 800 MHz
Bruker AVANCE III 800 MHz
Bruker AVANCE NEO 950 MHz