BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 50846

Title: Imino resonance assignment of murine Ox40 mRNA 3'UTR   PubMed: 35357505

Deposition date: 2021-03-24 Original release date: 2022-03-15

Authors: Tants, Jan-Niklas; Schlundt, Andreas

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).

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

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

Experimental source:   Production method: enzymatic semisynthesis

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

Data sets:
Data typeCount
15N chemical shifts33
1H chemical shifts35

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1Ox40 mRNA 3'UTR1

Entities:

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

1   GCAUUACUAC
2   AGGAGUGGAU
3   UUUAUGGGGC
4   ACGGACAACC
5   CAUAUCCUGA
6   UGCCUGCCAG
7   UACCCUCCAC
8   ACCGUUCUAG
9   GUGCUGGGCU
10   GGCUCUGGGC
11   UUUCCUAUGU
12   AUGCUAUGCA
13   UACUACCUGC
14   CUGGUGGUGC
15   UCCUAAUAAA
16   CAUGCUA

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:

NameSampleSample stateSample conditions
1D 1Hsample_2isotropicsample_conditions_1
2D 1H-1H NOESYsample_2isotropicsample_conditions_1
2D 1H-15N SOFAST HMQCsample_2isotropicsample_conditions_1
1D 1Hsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
2D 1H-15N SOFAST HMQCsample_1isotropicsample_conditions_1
1D 1Hsample_3isotropicsample_conditions_1
2D 1H-1H NOESYsample_3isotropicsample_conditions_1
2D 1H-15N SOFAST HMQCsample_3isotropicsample_conditions_1
1D 1Hsample_4isotropicsample_conditions_1
2D 1H-1H NOESYsample_4isotropicsample_conditions_1
2D 1H-15N SOFAST HMQCsample_4isotropicsample_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