BMRB Entry 5777

Name: PODN:RNA [5&#039;-R(AAAGGAGGA)-3&#039;/5&#039;-D(XXXXXXX)-3&#039;]
Published: 2003-06-09

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PDB ID: 1ntt
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR5777
MolProbity Validation Chart

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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:

PODN:RNA [5'-R(AAAGGAGGA)-3'/5'-D(XXXXXXX)-3']

Deposition date:

2003-03-16

Original release date:

2003-06-09

Authors:

Znosko, B.; Barnes, T.; Krugh, T.; Turner, D.

Citation:

Citation: Znosko, B.; Barnes, T.; Krugh, T.; Turner, D.. "NMR Studies of DNA Single Strands and DNA:RNA Hybrids With and Without 1-Propynylation at C5 of Oligopyrimidines" J. Am. Chem. Soc. 125, 6090-6097 (2003).

Assembly members:

Assembly members:
PODN chain, polymer, 11 residues, Formula weight is not available
DNA chain, polymer, 7 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):
PODN chain: UAAAGGAGGAG
DNA chain: XXXXXXX

Data sets:

assigned_chemical_shifts
- chemical_shift_set_1
- chemical_shift_set_2

Data type	Count
1H chemical shifts	145

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	RNA chain	1
2	PODN chain	2

Entities:

Entity 1, RNA chain 11 residues - Formula weight is not available

1

U

A

G

A

G

A

2

G

Entity 2, PODN chain 7 residues - Formula weight is not available

1

5PC

PDU

5PC

PDU

Samples:

sample_1: PODN chain 1 mM; DNA chain 1 mM; NaCl 80 mM; phosphate buffer 10 mM; EDTA 0.5 mM; H2O 90%; D2O 10%

sample_cond_1: ionic strength: 80 mM; pH: 7.0; pressure: 1 atm; temperature: 273 K

sample_cond_2: ionic strength: 80 mM; pH: 7.0; pressure: 1 atm; temperature: 303 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D NOESY	sample_1	not available	not available

Software:

VNMR v5.2 - collection

FELIX v2000 - data analysis

DISCOVER v95.0 - refinement, structure solution

NMR spectrometers:

Varian INOVA 500 MHz