BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
Member of WWPDB

BMRB Entry 27769

Title: GA-branchsite-containing RNA duplex with unmodified U2 snRNA site   PubMed: 30797552

Authors: Kennedy, Scott; Kielkopf, Clara; Bauer, William

Citation: Kennedy, Scott; Bauer, William; Wang, Wenhua; Kielkopf, Clara. "Dynamic stacking of an expected branch point adenosine in duplexes containing pseudouridine-modified or unmodified U2 snRNA sites"  Biochem. Biophys. Res. Commun. 511, 416-421 (2019).

Assembly members:
RNA_with_branchpoint_sequence, polymer, 11 residues, Formula weight is not available
RNA_with_unmodified_U2_snRNA_site, polymer, 10 residues, Formula weight is not available

Natural source:   Common Name: Human   Taxonomy ID: 9606   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Homo sapiens

Experimental source:   Production method: chemical synthesis   Host organism: NA

Entity Sequences (FASTA):
RNA_with_branchpoint_sequence: GCUACUGACGA
RNA_with_unmodified_U2_snRNA_site: CGUAGUAGCA

Data sets:
Data typeCount
13C chemical shifts36
1H chemical shifts182
31P chemical shifts19

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1RNA with branchpoint sequence1
2RNA with unmodified U2 snRNA site2

Entities:

Entity 1, RNA with branchpoint sequence 11 residues - Formula weight is not available

1   GCUACUGACG
2   A

Entity 2, RNA with unmodified U2 snRNA site 10 residues - Formula weight is not available

1   CGUAGUAGCA

Samples:

sample_1: RNA with branchpoint sequence 1 mM; RNA with unmodified U2 snRNA site 1 mM; potassium phosphate 10 mM; EDTA 0.25 mM

sample_2: RNA with branchpoint sequence 1 mM; RNA with unmodified U2 snRNA site 1 mM; potassium phosphate 10 mM; EDTA 0.25 mM

sample_conditions_1: ionic strength: 0.017 M; pH: 6.8; pressure: 1 atm; temperature: 298 K

sample_conditions_2: ionic strength: 0.017 M; pH: 6.8; pressure: 1 mbar; temperature: 273 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_2isotropicsample_conditions_2
2D 1H-1H TOCSYsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_2isotropicsample_conditions_2
2D 1H-31P COSYsample_1isotropicsample_conditions_1

Software:

VNMR v6.1C, Varian - collection

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

SPARKY, Goddard - chemical shift assignment, peak picking

NMR spectrometers:

  • Varian INOVA 600 MHz

Related Database Links: