BMRB Entry 4749

Name: NMR structure of a DNA three-way junction
Published: 2000-06-16

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR4749

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

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Title:

NMR structure of a DNA three-way junction

Deposition date:

2000-06-01

Original release date:

2000-06-16

Authors:

Thiviyanathan, Varatharasa; Luxon, B.; Leontis, Neocles; Donne, D.; Gorenstein, D.

Citation:

Citation: Thiviyanathan, Varatharasa; Luxon, B.; Leontis, Neocles; Donne, D.; Gorenstein, D.. "Hybrid-Hybrid matrix structural refinement of a DNA three-way junction from 3D NOESY-NOES" J. Biomol. NMR 14, 209-221 (1999).

Assembly members:

Assembly members:
DNA Three Way Junction, polymer, 10 residues, Formula weight is not available
DNA Three Way Junction, polymer, 10 residues, Formula weight is not available
DNA Three Way Junction, polymer, 12 residues, Formula weight is not available

Natural source:

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

Experimental source:

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
DNA Three Way Junction: GCTGCCACCG
DNA Three Way Junction: CGGTGCGTCC
DNA Three Way Junction: GGACGTCGCAGC

Data sets:

assigned_chemical_shifts

Data type	Count
1H chemical shifts	282

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	twj 1	1
2	twj 2	2
3	twj 3	3

Entities:

Entity 1, twj 1 10 residues - Formula weight is not available

1

DG

DC

DT

DG

DC

DA

DC

DG

Entity 2, twj 2 10 residues - Formula weight is not available

1

DC

DG

DT

DG

DC

DG

DT

DC

Entity 3, twj 3 12 residues - Formula weight is not available

1

DG

DA

DC

DG

DT

DC

DG

DC

DA

2

DG

DC

Samples:

sample_1: DNA Three Way Junction 2 mM; DNA Three Way Junction 2 mM; DNA Three Way Junction 2 mM; EDTA 0.5 mM; sodium_phosphate 100 mM; MgCl2 10 mM; NaCl 100 mM

sample_cond_1: ionic strength: 100 mM; pH: 6.8; temperature: 301 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D NOESY	sample_1	not available	sample_cond_1
3D NOESY-NOESY	sample_1	not available	sample_cond_1

Software:

MORASS v2.5 - iterative matrix relaxation

NMR spectrometers:

Varian Unity plus 750 MHz