BMRB Entry 51047

Title:
lox4 spacer 16-mer
Deposition date:
2021-07-29
Original release date:
2022-01-22
Authors:
Wagner, Nicole; Foster, Mark
Citation:

Citation: Wagner, Nicole; Foster, Mark. "Nearest-neighbor effects modulate loxP spacer DNA chemical shifts and guide oligonucleotide design for nuclear magnetic resonance studies"  Biochemistry 61, 67-76 (2022).
PubMed: 34985267

Assembly members:

Assembly members:
entity_1, polymer, 16 residues, Formula weight is not available
entity_2, polymer, 16 residues, Formula weight is not available

Natural source:

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

Experimental source:

Experimental source:   Production method: obtained from a vendor

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: CGTAGTGTATGTTACC
entity_2: GGTAACATACACTACG

Data sets:
Data typeCount
13C chemical shifts64
1H chemical shifts85

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1A1
2B2

Entities:

Entity 1, A 16 residues - Formula weight is not available

1   DCDGDTDADGDTDGDTDADT
2   DGDTDTDADCDC

Entity 2, B 16 residues - Formula weight is not available

1   DGDGDTDADADCDADTDADC
2   DADCDTDADCDG

Samples:

sample_1: lox4 spacer 16-mer 1.65 mM; sodium chloride 100 mM; TRIS, [U-2H], 10 mM; DSS 50 uM; sodium azide 0.02%; D2O 10%

sample_conditions_1: ionic strength: 0.1 M; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
1D 1Hsample_1isotropicsample_conditions_1
2D 1H-1H NOESYsample_1isotropicsample_conditions_1
2D 1H-13C HSQC aromaticsample_1isotropicsample_conditions_1
2D 1H-13C HSQC anomericsample_1isotropicsample_conditions_1

Software:

NMRFx Processor - processing

TOPSPIN - collection

NMRViewJ - chemical shift assignment, data analysis, peak picking

NMR spectrometers:

  • Bruker AVANCE III 600 MHz
  • Bruker AVANCE III 800 MHz