BMRB: 19441

NMR structure of spermine modified DNA duplex

Authors

Brzezinska, J., Gdaniec, Z., Popenda, L., Markiewicz, W.T.

Assembly

spermine modified DNA duplex

Entity

1. DNA (5'-D(*GP*TP*CP*GP*GP*CP*TP*G)-3') (polymer, Thiol state: not present), 8 monomers, 2521.587 Da Detail

GTCGGCTG

2. DNA (5'-D(*CP*AP*GP*(N4S)P*CP*GP*AP*C)-3') (polymer, Thiol state: not present), 8 monomers, 2644.877 Da Detail

CAGXCGAC

Total weight

5166.464 Da

Max. entity weight

2644.877 Da

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete1

Sequence coverage: 93.8 %, Completeness: 85.2 %, Completeness (bb): 96.7 % Detail

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Polymer type: polydeoxyribonucleotide

	Total	1H	31P
All	85.2 % (138 of 162)	85.0 % (125 of 147)	86.7 % (13 of 15)
Suger, PO4	96.7 % (116 of 120)	98.1 % (103 of 105)	86.7 % (13 of 15)
Nucleobase	52.4 % (22 of 42)	52.4 % (22 of 42)
Aromatic	73.3 % (22 of 30)	73.3 % (22 of 30)
Methyl	0.0 % (0 of 2)	0.0 % (0 of 2)

1. DNA (5'-D(*GP*TP*CP*GP*GP*CP*TP*G)-3')

GTCGGCTG

2. DNA (5'-D(*CP*AP*GP*(N4S)P*CP*GP*AP*C)-3')

CAGXCGAC

Show sample condition

Sample

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0

#	Name	Isotope labeling	Type	Concentration
1	DNA (5'-D(*CP*AP*GP*(N4S)P*CP*GP*AP*C)-3')	natural abundance		0.5 mM
2	DNA (5'-D(*GP*TP*CP*GP*GP*CP*TP*G)-3')	natural abundance		0.5 mM
3	D2O	[U-100% 2H]		100 %
4	sodium chloride	natural abundance		50 mM
5	sodium phosphate	natural abundance		10 mM
6	EDTA	natural abundance		0.1 mM

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Chem. Shift Complete2

Sequence coverage: 68.8 %, Completeness: 48.1 %, Completeness (bb): 48.3 % Detail

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Polymer type: polydeoxyribonucleotide

	Total	1H	31P
All	48.1 % (156 of 324)	48.6 % (143 of 294)	43.3 % (13 of 30)
Suger, PO4	48.3 % (116 of 240)	49.0 % (103 of 210)	43.3 % (13 of 30)
Nucleobase	47.6 % (40 of 84)	47.6 % (40 of 84)
Aromatic	46.7 % (28 of 60)	46.7 % (28 of 60)
Methyl	50.0 % (2 of 4)	50.0 % (2 of 4)

1. DNA (5'-D(*GP*TP*CP*GP*GP*CP*TP*G)-3')

GTCGGCTG

2. DNA (5'-D(*CP*AP*GP*(N4S)P*CP*GP*AP*C)-3')

CAGXCGAC

Show sample condition

Sample

Solvent system 100% D2O, Pressure 1 atm, Temperature 283 K, pH 7.0

#	Name	Isotope labeling	Type	Concentration
1	DNA (5'-D(*CP*AP*GP*(N4S)P*CP*GP*AP*C)-3')	natural abundance		0.5 mM
2	DNA (5'-D(*GP*TP*CP*GP*GP*CP*TP*G)-3')	natural abundance		0.5 mM
3	D2O	[U-100% 2H]		100 %
4	sodium chloride	natural abundance		50 mM
5	sodium phosphate	natural abundance		10 mM
6	EDTA	natural abundance		0.1 mM

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Release date

2014-01-20

Citation

Polyaminooligonucleotide: NMR structure of duplex DNA containing a nucleoside with spermine residue, N-[4,9,13-triazatridecan-1-yl]-2'-deoxycytidine
Brzezinska, J., Gdaniec, Z., Popenda, L., Markiewicz, W.T.
Biochim. Biophys. Acta (2014), 1840, 1163-1170, PubMed 24361616 , DOI 10.1016/j.bbagen.2013.12.008 , Abstract

Entries sharing articles BMRB: 1 entries Detail

Experiments performed 6 experiments Detail