BMRB Entry 50846

Name: Imino resonance assignment of murine Ox40 mRNA 3'UTR
Published: 2022-03-15

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR50846

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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 assignment of murine Ox40 mRNA 3'UTR

Deposition date:

2021-03-24

Original release date:

2022-03-15

Authors:

Tants, Jan-Niklas; Schlundt, Andreas

Citation:

Citation: Tants, Jan-Niklas; Becker, Lea Marie; McNicoll, Francois; Muller-McNicoll, Michaela; Schlundt, Andreas. "NMR-derived secondary structure of the full-length Ox40 mRNA 3'UTR and its multivalent binding to the immunoregulatory RBP Roquin" Nucleic Acids Res. 50, 4083-4099 (2022).
PubMed: 35357505

Assembly members:

Assembly members:
entity_1, polymer, 157 residues, Formula weight is not available

Natural source:

Natural source: Common Name: Mouse Taxonomy ID: 10090 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Mus musculus

Experimental source:

Experimental source: Production method: enzymatic semisynthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: GCAUUACUACAGGAGUGGAU UUUAUGGGGCACGGACAACC CAUAUCCUGAUGCCUGCCAG UACCCUCCACACCGUUCUAG GUGCUGGGCUGGCUCUGGGC UUUCCUAUGUAUGCUAUGCA UACUACCUGCCUGGUGGUGC UCCUAAUAAACAUGCUA

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
15N chemical shifts	33
1H chemical shifts	35

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Ox40 mRNA 3'UTR	1

Entities:

Entity 1, Ox40 mRNA 3'UTR 157 residues - Formula weight is not available

1

G

C

A

U

A

C

U

A

C

2

A

G

A

G

U

G

A

U

3

U

A

U

G

C

4

A

C

G

A

C

A

C

5

C

A

U

A

U

C

U

G

A

6

U

G

C

U

G

C

A

G

7

U

A

C

U

C

A

C

8

A

C

G

U

C

U

A

G

9

G

U

G

C

U

G

C

U

10

G

C

U

C

U

G

C

11

U

C

U

A

U

G

U

12

A

U

G

C

U

A

U

G

C

A

13

U

A

C

U

A

C

U

G

C

14

C

U

G

U

G

U

G

C

15

U

C

U

A

U

A

16

C

A

U

G

C

U

A

Samples:

sample_1: Ox40 3'UTR CDE 280 uM

sample_2: Ox40 3'UTR Terminus 440 uM

sample_3: Ox40 3'UTR Bulge 350 uM

sample_4: Ox40 3'UTR ADE 600 uM

sample_conditions_1: ionic strength: 50 mM; pH: 7.0; pressure: 1 atm; temperature: 283 K

Experiments:

Name	Sample	Sample state	Sample conditions
1D 1H	sample_2	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_2	isotropic	sample_conditions_1
2D 1H-15N SOFAST HMQC	sample_2	isotropic	sample_conditions_1
1D 1H	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-15N SOFAST HMQC	sample_1	isotropic	sample_conditions_1
1D 1H	sample_3	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_3	isotropic	sample_conditions_1
2D 1H-15N SOFAST HMQC	sample_3	isotropic	sample_conditions_1
1D 1H	sample_4	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_4	isotropic	sample_conditions_1
2D 1H-15N SOFAST HMQC	sample_4	isotropic	sample_conditions_1

Software:

TOPSPIN v4.0.6 - processing

NMRFAM-SPARKY v1.470 - chemical shift assignment, peak picking

NMR spectrometers:

Bruker AVANCE III 800 MHz
Bruker AVANCE III 600 MHz
Bruker AVANCE III 700 MHz
Bruker Avance II 600 MHz