BMRB Entry 28090

Title:
1H, 13C, and 15N chemical shifts for T4 Gene 60 mRNA 5' Stem-Loop
Deposition date:
2020-02-29
Original release date:
2021-07-16
Authors:
Capece, Mark; Puglisi, Joseph
Citation:

Citation: O'Loughlin, Sinead; Capece, Mark; Klimova, Mariia; Wills, Norma; Coakley, Arthur; Samatova, Ekaterina; O'Connor, Patrick; Loughran, Gary; Weissman, Jonathan; Baranov, Pavel; Rodnina, Marina; Puglisi, Joseph; Atkins, John. "Polysomes bypass a 50 nucleotide coding gap less efficiently than monosomes due to attenuation of an unstable 5' mRNA stem loop stimulator and enhanced drop-off"  J. Mol. Biol. 432, 4369-4387 (2020).
PubMed: 32454154

Assembly members:

Assembly members:
5'_stem_loop, polymer, 30 residues, Formula weight is not available

Natural source:

Natural source:   Common Name: T4 bacteriophage   Taxonomy ID: 38018   Superkingdom: Viruses   Kingdom: not available   Genus/species: T4 bacteriophage

Experimental source:

Experimental source:   Production method: in vitro transcription   Host organism: T7 RNA polymerase   Vector: N/A

Entity Sequences (FASTA):

Entity Sequences (FASTA):
5'_stem_loop: GUGCGAAUGUCGCUAUUAUG ACAGACGCAC

Data sets:
Data typeCount
13C chemical shifts73
15N chemical shifts44
1H chemical shifts135

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
15' stem loop1

Entities:

Entity 1, 5' stem loop 30 residues - Formula weight is not available

1   GUGCGAAUGU
2   CGCUAUUAUG
3   ACAGACGCAC

Samples:

10%_D2O: 5' stem loop, [U-99% 13C; U-99% 15N], 0.3 mM; sodium phosphate 10 mM; sodium chloride 20 mM

99.99%_D2O: 5' stem loop, [U-99% 13C; U-99% 15N], 0.3 mM; sodium phosphate 10 mM; sodium chloride 20 mM

10%_D2O_conditions: pH: 6.5; pressure: 1 atm; temperature: 298 K

99.99%_D2O_conditions: pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H NOESY10%_D2Oisotropic10%_D2O_conditions
2D 1H-15N HSQC10%_D2Oisotropic10%_D2O_conditions
2D 1H-15N HNNCOSY10%_D2Oisotropic10%_D2O_conditions
3D 1H-15N NOESYHSQC10%_D2Oisotropic10%_D2O_conditions
3D HNCCCH10%_D2Oisotropic10%_D2O_conditions
2D 1H-1H NOESY99.99%_D2Oisotropic99.99%_D2O_conditions
2D 1H-13C HSQC99.99%_D2Oisotropic99.99%_D2O_conditions
3D 1H-13C NOESYHSQC99.99%_D2Oisotropic99.99%_D2O_conditions
3D HCCH-TOCSY99.99%_D2Oisotropic99.99%_D2O_conditions
2D DQF-COSY99.99%_D2Oisotropic99.99%_D2O_conditions

Software:

VNMRJ v4.2, Varian - collection, processing

SPARKY, Goddard - chemical shift assignment, peak picking

NMR spectrometers:

  • Agilent VNMRS 800 MHz
  • Agilent INOVA 600 MHz