BMRB Entry 50237

Name: free aptamer RNA
Published: 2021-03-01

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR50237

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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:

free aptamer RNA

Deposition date:

2020-04-14

Original release date:

2021-03-01

Authors:

Nishikawa, Tadateru; Wojciak, Jonathan; Dyson, Helen Jane; Wright, Peter

Citation:

Citation: Nishikawa, Tadateru; Wojciak, Jonathan; Dyson, Helen Jane; Wright, Peter. "RNA Binding by the KTS Splice Variants of Wilms' Tumor Suppressor Protein WT1" Biochemistry 59, 3889-3901 (2020).
PubMed: 32955251

Assembly members:

Assembly members:
entity_1, polymer, 29 residues, Formula weight is not available

Natural source:

Natural source: Common Name: not available Taxonomy ID: not available Superkingdom: not available Kingdom: not available Genus/species: not available not available

Experimental source:

Experimental source: Production method: enzymatic semisynthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: GGGCCACCAACGACAUUGAU AUGGUGCCC

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
13C chemical shifts	179
15N chemical shifts	6
1H chemical shifts	211

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 29 residues - Formula weight is not available

1

G

C

A

C

A

2

C

G

A

C

A

U

G

A

U

3

A

U

G

U

G

C

Samples:

sample_1: aptamer RNA, [U-99% 13C; U-99% 15N], 0.55 ± 0.1 mM; TRIS, [U-100% 2H], 10 ± 0.1 mM; potassium chloride 350 ± 0.5 mM; DTT 10 ± 0.1 mM; ZnSO4 5 ± 0.1 uM; sodium azide 2 ± 0.1 mM

sample_2: aptamer RNA, [U-100% 15N], 0.55 ± 0.1 mM; TRIS, [U-100% 2H], 10 ± 0.1 mM; potassium chloride 350 ± 0.5 mM; DTT 10 ± 0.1 mM; ZnSO4 5 ± 0.1 uM; sodium azide 2 ± 0.1 mM

sample_conditions_1: ionic strength: 350 mM; pH: 7.1; pressure: 1 atm; temperature: 310 K

sample_conditions_2: ionic strength: 350 mM; pH: 7.1; pressure: 1 atm; temperature: 280 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D HCCH-COSY	sample_1	isotropic	sample_conditions_1
3D HMQC-NOESY	sample_1	isotropic	sample_conditions_1

Software:

NMRPipe - processing

NMRView - chemical shift assignment, data analysis, peak picking

NMR spectrometers:

Bruker Avance 900 MHz
Bruker Avance 750 MHz
Bruker Avance 500 MHz
Bruker DRX 800 MHz
Bruker DRX 600 MHz