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Found 1 Document (0.262 seconds)

BMRB: 30506

NMR structure for Sp1 transcription factor duplex 5'-d(TGGGCGGGA)

Authors

Assembly

Sp1 transcription factor duplex 5'-d(TGGGCGGGA)

Entity

1. Sp1 transcription factor duplex 5'-d(TGGGCGGGA), entity 1 (polymer, Thiol state: not present), 9 monomers, 2899.831 Da Detail

TGGGCGGGA

2. Sp1 transcription factor duplex 5'-d(TGGGCGGGA), entity 2 (polymer, Thiol state: not present), 9 monomers, 2699.711 Da Detail

TCCCGCCCA

Total weight

5599.542 Da

Max. entity weight

2899.831 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Data set

assigned_chemical_shifts, spectral_peak_list

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 78.1 %, Completeness (bb): 90.5 % Detail

Polymer type: polydeoxyribonucleotide

	Total	¹H
All	78.1 % (139 of 178)	78.1 % (139 of 178)
Suger, PO4	90.5 % (114 of 126)	90.5 % (114 of 126)
Nucleobase	48.1 % (25 of 52)	48.1 % (25 of 52)
Aromatic	69.4 % (25 of 36)	69.4 % (25 of 36)
Methyl	0.0 % (0 of 2)	0.0 % (0 of 2)

1. entity 1

TGGGCGGGA

2. entity 2

TCCCGCCCA

Show sample condition

Sample #1

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 650 uM DNA, 25 mM sodium chloride, 5 mM Na Phosphate, 0.5 mM EDTA, 100% D2O

#	Name	Isotope labeling	Concentration
1	entity_1	natural abundance	650 uM
2	entity_2	natural abundance	650 uM
3	sodium chloride	natural abundance	25 mM
4	Na Phosphate	natural abundance	5 mM
5	EDTA	natural abundance	0.5 mM

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 675 uM DNA, 25 mM sodium chloride, 5 mM Na Phosphate, 0.5 mM EDTA, 90% H2O/10% D2O

#	Name	Isotope labeling	Concentration
6	entity_1	natural abundance	675 uM
7	entity_2	natural abundance	675 uM
8	sodium chloride	natural abundance	25 mM
9	Na Phosphate	natural abundance	5 mM
10	EDTA	natural abundance	0.5 mM

Release date

2018-10-11

Citation

An NMR Structure Determination and Analysis of Four Sp1 Consensus Sequences
Davis, E.V., Hennig, M., Arya, D.P.

Experiments performed 6 experiments Detail

1 2D DQF-COSY

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 650 uM DNA, 25 mM sodium chloride, 5 mM Na Phosphate, 0.5 mM EDTA, 100% D2O

#	Name	Isotope labeling	Concentration
1	entity_1	natural abundance	650 uM
2	entity_2	natural abundance	650 uM
3	sodium chloride	natural abundance	25 mM
4	Na Phosphate	natural abundance	5 mM
5	EDTA	natural abundance	0.5 mM

2 2D 1H-1H TOCSY

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 650 uM DNA, 25 mM sodium chloride, 5 mM Na Phosphate, 0.5 mM EDTA, 100% D2O

#	Name	Isotope labeling	Concentration
1	entity_1	natural abundance	650 uM
2	entity_2	natural abundance	650 uM
3	sodium chloride	natural abundance	25 mM
4	Na Phosphate	natural abundance	5 mM
5	EDTA	natural abundance	0.5 mM

3 2D 1H-13C HSQC

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 650 uM DNA, 25 mM sodium chloride, 5 mM Na Phosphate, 0.5 mM EDTA, 100% D2O

#	Name	Isotope labeling	Concentration
1	entity_1	natural abundance	650 uM
2	entity_2	natural abundance	650 uM
3	sodium chloride	natural abundance	25 mM
4	Na Phosphate	natural abundance	5 mM
5	EDTA	natural abundance	0.5 mM

4 2D 1H-1H NOESY

Instrument

Bruker Avance - 800 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 650 uM DNA, 25 mM sodium chloride, 5 mM Na Phosphate, 0.5 mM EDTA, 100% D2O

#	Name	Isotope labeling	Concentration
1	entity_1	natural abundance	650 uM
2	entity_2	natural abundance	650 uM
3	sodium chloride	natural abundance	25 mM
4	Na Phosphate	natural abundance	5 mM
5	EDTA	natural abundance	0.5 mM

5 2D 1H-1H NOESY

Instrument

Bruker AvanceIII - 850 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 675 uM DNA, 25 mM sodium chloride, 5 mM Na Phosphate, 0.5 mM EDTA, 90% H2O/10% D2O

#	Name	Isotope labeling	Concentration
6	entity_1	natural abundance	675 uM
7	entity_2	natural abundance	675 uM
8	sodium chloride	natural abundance	25 mM
9	Na Phosphate	natural abundance	5 mM
10	EDTA	natural abundance	0.5 mM

6 2D ECOSY

Instrument

Bruker AvanceIII - 850 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 7.0, Details 650 uM DNA, 25 mM sodium chloride, 5 mM Na Phosphate, 0.5 mM EDTA, 100% D2O

#	Name	Isotope labeling	Concentration
1	entity_1	natural abundance	650 uM
2	entity_2	natural abundance	650 uM
3	sodium chloride	natural abundance	25 mM
4	Na Phosphate	natural abundance	5 mM
5	EDTA	natural abundance	0.5 mM

Chemical shift validation 4 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr30506_3.str
Diamagnetism of the molecular assembly	True (excluding Oxygen atoms)
Whether the assembly has a disulfide bond	None
Whether the assembly has a other bond	None
Whether the assembly contains a cyclic polymer	None
Overall data processing status	OK

Disulfide bonds

None

Other bonds (neither disulfide, covalent nor hydrogen bonds, e.g. Zinc–sulphur bond)

None

Non-standard residues

None

Content subtype: bmr30506_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chemical_shifts_1	OK	139		100.0 (chain: 1, length: 9), 100.0 (chain: 2, length: 9)
1	Chemical shift references	chem_shift_reference_1	OK	1		No information

Assigned chemical shifts

Saveframe: assigned_chemical_shifts_1
- Status: OK
- Sequence coverage of experimental data
  - Entity_assembly_ID: 1, Chain length: 9, Sequence coverage: 100.0%
  - Entity_assembly_ID: 2, Chain length: 9, Sequence coverage: 100.0%
- Total number of assignments
  - ¹H chemical shifts: 139
- Completeness of assignments
  - Entity_assemble_ID: 1
  - Entity_assemble_ID: 2
- Histogram of normalized assigned chemical shifts

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	84	68	81.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	63	58	92.1

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	21	10	47.6

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	1	0	0.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	8	7	87.5

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	94	71	75.5

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	63	56	88.9

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	31	15	48.4

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	1	0	0.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	3	2	66.7

Keywords DNA, Sp1 Consensus Sequence

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Found 1 Document (0.262 seconds)

BMRB: 30506

Sample #1

Sample #2

Experiments performed 6 experiments Detail

Instrument

Sample

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Sample

Instrument

Sample

Instrument

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Chemical shift validation 4 contents Detail