BMRB Entry 51956

Name: Imino resonance assignments of SL4ext, the SARS-CoV-2 RNA element 5_SL4 extended by a transiently folded stemloop
Published: 2023-05-13

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR51956

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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:

Imino resonance assignments of SL4ext, the SARS-CoV-2 RNA element 5_SL4 extended by a transiently folded stemloop

Deposition date:

2023-05-06

Original release date:

2023-05-13

Authors:

Korn, Sophie; Schlundt, Andreas

Citation:

Citation: Korn, Sophie; Dhamotharan, Karthikeyan; Jeffries, Cy; Schlundt, Andreas. "The preference signature of the SARS-CoV-2 Nucleocapsid NTD for its 5'-genomic RNA elements" Nat. Commun. 14, 3331-3331 (2023).
PubMed: 37286558

Assembly members:

Assembly members:
entity_1, polymer, 69 residues, Formula weight is not available

Natural source:

Natural source: Common Name: SARS-CoV-2 Taxonomy ID: 2697049 Superkingdom: Viruses Kingdom: not available Genus/species: Betacoronavirus HCoV-SARS

Experimental source:

Experimental source: Production method: enzymatic semisynthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: GGUCUGUGUGGCUGUCACUC GGCUGCAUGCUUAGUGCACU CACGCAGUAUAAUUAAUAAC UAAUUACUG

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
15N chemical shifts	20
1H chemical shifts	20

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	SL4ext	1

Entities:

Entity 1, SL4ext 69 residues - Formula weight is not available

The first two Gs 1+2, are artificially included to enable efficient IVT. The natural sequence (Wuhan) starts with U83, which is represented by U3 in this entry.

1

G

U

C

U

G

U

G

U

G

2

G

C

U

G

U

C

A

C

U

C

3

G

C

U

G

C

A

U

G

C

4

U

A

G

U

G

C

A

C

U

5

C

A

C

G

C

A

G

U

A

U

6

A

U

A

U

A

C

7

U

A

U

A

C

U

G

Samples:

sample_1: SL4ext, [U-99% 15N], 600 ± 12 uM; potassium phosphate 25 ± 0.25 mM; potassium chloride 150 ± 1.5 mM

sample_conditions_1: ionic strength: 150 mM; pH: 6.5; pressure: 1 atm; temperature: 278 K

Experiments:

Name	Sample	Sample state	Sample conditions
1D 1H	sample_1	isotropic	sample_conditions_1
2D 1H-15N TROSY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1

Software:

TOPSPIN vv3, v4 - chemical shift assignment, collection, data analysis, processing

ANALYSIS v2.4 - chemical shift assignment, data analysis

NMR spectrometers:

Bruker AVANCE III 950 MHz