BMRB Entry 34588

Name: deoxyxylose nucleic acid hairpin
Published: 2021-02-05

Click here to enlarge.

PDB ID: 7bfx
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR34588
MolProbity Validation Chart

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry

Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

Select model:

I am color blind

Download raw data. Direct link to this display. Help

Title: deoxyxylose nucleic acid hairpin PubMed: 33427360

Deposition date: 2021-01-05 Original release date: 2021-02-05

Authors: Mattelaer, C.; Mohitosh, M.; Smets, L.; Maiti, M.; Schepers, G.; Mattelaer, H.; Rosemeyer, H.; Herdewijn, P.; Lescrinier, E.

Citation: Mattelaer, C.; Maiti, M.; Smets, L.; Maiti, M.; Schepers, G.; Mattelaer, H.; Rosemeyer, H.; Herdewijn, P.; Lescrinier, E.. "Stable hairpin structures formed by xylose based nucleic acids." Chembiochem 22, 1638-1645 (2021).

Assembly members:
entity_1, polymer, 20 residues, 6054.919 Da.

Natural source: Common Name: E. coli Taxonomy ID: 562 Superkingdom: Bacteria Kingdom: not available Genus/species: Escherichia coli

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):
entity_1: XXXXXXXXXXXXXXXXXXXX

Data sets:

assigned_chemical_shifts
- assigned_chemical_shifts_1

Data type	Count
13C chemical shifts	66
1H chemical shifts	167

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	unit_1	1

Entities:

Entity 1, unit_1 20 residues - 6054.919 Da.

1		XA	XG	XC	XA	XA	XT	XC	XC	XC	XC
2		XC	XC	XG	XG	XA	XT	XT	XG	XC	XT

Samples:

sample_1: oligomer 1.9 mM

sample_conditions_1: ionic strength: 0 M; pH: 6.9 pD; pressure: 1 atm; temperature: 283 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-1H NOESY	sample_1	anisotropic	sample_conditions_1

Software:

CARA, Keller and Wuthrich - chemical shift assignment, peak picking

X-PLOR NIH, Schwieters, Kuszewski, Tjandra and Clore - structure calculation

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

NMR spectrometers:

Bruker AVANCE II 600 MHz