BMRB Entry 5979

Name: A parallel stranded DNA duplex with an A-G mismatch base-pair
Published: 2003-01-20

Click here to enlarge.

PDB ID: 1r2l
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR5979
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:

A parallel stranded DNA duplex with an A-G mismatch base-pair

Deposition date:

2003-10-21

Original release date:

2003-01-20

Authors:

Venkitakrishnan, R.; Bhaumik, S.; Chary, K.; Govil, G.; Liu, K.; Howard, F.; Miles, T.

Citation:

Citation: Venkitakrishnan, R.; Bhaumik, S.; Chary, K.; Govil, G.; Liu, K.; Howard, F.; Miles, T.. "A Parallel Stranded DNA Duplex with an A-G Mismatch Base-Pair: (Ccataatttacc:Cctatgaaatcc)" Recent Trends in Biophys. Res. ., 1-. (2004).

Assembly members:

Assembly members:
A-G mismatch base-pair parallel DNA duplex, strand A, polymer, 12 residues, Formula weight is not available
A-G mismatch base-pair parallel DNA duplex, strand B, polymer, 12 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 not available

Experimental source:

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
A-G mismatch base-pair parallel DNA duplex, strand A: CCATAATTTACC
A-G mismatch base-pair parallel DNA duplex, strand B: CCTATGAAATCC

Data sets:

assigned_chemical_shifts
- chemical_shift_set_1
- chemical_shift_set_2

Data type	Count
1H chemical shifts	229

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	DNA strand A	1
2	DNA strand B	2

Entities:

Entity 1, DNA strand A 12 residues - Formula weight is not available

1

DC

DA

DT

DA

DT

DA

2

DC

Entity 2, DNA strand B 12 residues - Formula weight is not available

1

DC

DT

DA

DT

DG

DA

DT

2

DC

Samples:

sample_1: A-G mismatch base-pair parallel DNA duplex, strand A 5 mM; A-G mismatch base-pair parallel DNA duplex, strand B 5 mM; sodium acetate buffer, [U-2H], 0.05 M; NaCl 0.1 M; D2O 100%

sample_2: A-G mismatch base-pair parallel DNA duplex, strand A 5 mM; A-G mismatch base-pair parallel DNA duplex, strand B 5 mM; sodium acetate buffer, [U-2H], 0.05 M; NaCl 0.1 M; D2O 10%; H2O 90%

sample_cond_1: ionic strength: 0.1 M; pH: 6.8; pressure: 1 atm; temperature: 298 K

sample_cond_2: ionic strength: 0.1 M; pH: 5.5; pressure: 1 atm; temperature: 278 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D NOESY	not available	not available	not available
2D TOCSY	not available	not available	not available
jump return NOESY	not available	not available	not available
E-COSY	not available	not available	not available

Software:

DISCOVER v3.1 - refinement

InsightII vII - structure solution

NMR spectrometers:

Bruker AMX 500 MHz