BMRB Entry 34590

Title:
GA repetition with i-motif clip at 5'-end
Deposition date:
2021-01-12
Original release date:
2021-11-05
Authors:
Novotny, A.; Novotny, J.
Citation:

Citation: Novotny, A.; Novotny, J.; Kejnovka, I.; Vorlickova, M.; Fiala, R.; Marek, R.. "Revealing structural peculiarities of homopurine GA repetition stuck by i-motif clip"  Nucleic Acids Res. 49, 11425-11437 (2021).
PubMed: 34718718

Assembly members:

Assembly members:
entity_1, polymer, 7 residues, 2109.429 Da.
entity_2, polymer, 7 residues, 2108.421 Da.

Natural source:

Natural source:   Common Name: not available   Taxonomy ID: 32630   Superkingdom: not available   Kingdom: not available   Genus/species: synthetic construct

Experimental source:

Experimental source:   Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: XCXGAGA
entity_2: CXCGAGA

Data sets:
Data typeCount
1H chemical shifts70

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1unit_11
2unit_21
3unit_32
4unit_42

Entities:

Entity 1, unit_1 7 residues - 2109.429 Da.

1   DNRDCDNRDGDADGDA

Entity 2, unit_3 7 residues - 2108.421 Da.

1   DCDNRDCDGDADGDA

Samples:

sample_1: C3GAGA, entity_1 1.3 ± 0.1 mM; C3GAGA, entity_2 1.3 ± 0.1 mM

sample_2: C3GAGA, entity_1 1.3 ± 0.1 mM; C3GAGA, entity_2 1.3 ± 0.1 mM

sample_conditions_1: ionic strength: 60 mM; pH: 5; pressure: 1 atm; temperature: 278.2 K

sample_conditions_2: ionic strength: 60 mM; pH: 5; pressure: 1 atm; temperature: 298.2 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_2isotropicsample_conditions_2

Software:

NMRFAM-SPARKY v1.413, National Magnetic Resonance Facility at Madison - chemical shift assignment

Amber v16, Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman - refinement, structure calculation

TopSpin v4.0, Bruker Biospin - collection

NMR spectrometers:

  • Bruker AVANCE III HD 700 MHz