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BMRB: 17130

1A1L

Zif 268 with 12bp DNA

Authors

Takayama, Y., Sahu, D.

Assembly

zif268-12bpDNA

Entity

1. zif268 (polymer, Thiol state: all other bound), 90 monomers, 10791.19 Da Detail

PERPYACPVE SCDRRFSRSD ELTRHIRIHT GQKPFQCRIC MRNFSRSDHL TTHIRTHTGE KPFACDICGR KFARSDERKR HTKIHLRQKD

2. 12bp DNA (polymer, Thiol state: not present), 24 monomers, 7443.727 Da Detail

AGCGTGGGCG TATACGCCCA CGCA

3. ZN (non-polymer, Thiol state: not present), 65.409 × 3 Da

Total weight

18431.145 Da

Max. entity weight

10791.19 Da

Source organism

Exptl. method

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 78.1 %, Completeness: 28.6 %, Completeness (bb): 50.6 % Detail

Polymer type: polypeptide(L) polydeoxyribonucleotide

	Total	¹H	¹³C	¹⁵N
All	28.6 % (376 of 1316)	13.4 % (109 of 813)	44.4 % (184 of 414)	93.3 % (83 of 89)
Backbone	50.6 % (353 of 698)	26.0 % (90 of 346)	67.4 % (180 of 267)	97.6 % (83 of 85)
Sidechain	4.3 % (30 of 705)	4.5 % (21 of 467)	3.8 % (9 of 234)	0.0 % (0 of 4)
Aromatic	1.5 % (2 of 134)	2.2 % (2 of 91)	0.0 % (0 of 43)
Methyl	6.3 % (4 of 63)	9.1 % (3 of 33)	3.3 % (1 of 30)

1. zif268

PERPYACPVE SCDRRFSRSD ELTRHIRIHT GQKPFQCRIC MRNFSRSDHL TTHIRTHTGE KPFACDICGR KFARSDERKR HTKIHLRQKD

2. 12bp DNA

AGCGTGGGCG TATACGCCCA CGCA

Show sample condition

Sample

Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 273 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	TRIS	natural abundance		10 mM
2	potassium chloride	natural abundance		20 mM
3	zif268	[U-13C; U-15N]		1 mM
4	12bp DNA	natural abundance		1.2 mM
5	H2O	natural abundance		93 %
6	D2O	natural abundance		7 %

Release date

2010-09-23

Citation

NMR studies of translocation of the Zif268 protein between its target DNA Sites
Takayama, Y., Sahu, D., Iwahara, J.
Biochemistry (2010), 49, 7998-8005, PubMed 20718505 , DOI 10.1021/bi100962h , Abstract

Related entities 1. zif268, : 1 : 23 : 1470 entities Detail

Experiments performed 8 experiments Detail

1 3D HNCACO

Instrument

Varian Uniform NMR System - 800 MHz

Sample

State isotropic, Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 273 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	TRIS	natural abundance		10 mM
2	potassium chloride	natural abundance		20 mM
3	zif268	[U-13C; U-15N]		1 mM
4	12bp DNA	natural abundance		1.2 mM
5	H2O	natural abundance		93 %
6	D2O	natural abundance		7 %

2 3D HNCO

Instrument

Varian Uniform NMR System - 800 MHz

Sample

State isotropic, Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 273 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	TRIS	natural abundance		10 mM
2	potassium chloride	natural abundance		20 mM
3	zif268	[U-13C; U-15N]		1 mM
4	12bp DNA	natural abundance		1.2 mM
5	H2O	natural abundance		93 %
6	D2O	natural abundance		7 %

3 3D HNCA

Instrument

Varian Uniform NMR System - 800 MHz

Sample

State isotropic, Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 273 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	TRIS	natural abundance		10 mM
2	potassium chloride	natural abundance		20 mM
3	zif268	[U-13C; U-15N]		1 mM
4	12bp DNA	natural abundance		1.2 mM
5	H2O	natural abundance		93 %
6	D2O	natural abundance		7 %

4 3D HN(CO)CA

Instrument

Varian Uniform NMR System - 800 MHz

Sample

State isotropic, Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 273 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	TRIS	natural abundance		10 mM
2	potassium chloride	natural abundance		20 mM
3	zif268	[U-13C; U-15N]		1 mM
4	12bp DNA	natural abundance		1.2 mM
5	H2O	natural abundance		93 %
6	D2O	natural abundance		7 %

5 3D CBCA(CO)NH

Instrument

Varian Uniform NMR System - 800 MHz

Sample

State isotropic, Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 273 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	TRIS	natural abundance		10 mM
2	potassium chloride	natural abundance		20 mM
3	zif268	[U-13C; U-15N]		1 mM
4	12bp DNA	natural abundance		1.2 mM
5	H2O	natural abundance		93 %
6	D2O	natural abundance		7 %

6 3D C(CO)NH

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 273 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	TRIS	natural abundance		10 mM
2	potassium chloride	natural abundance		20 mM
3	zif268	[U-13C; U-15N]		1 mM
4	12bp DNA	natural abundance		1.2 mM
5	H2O	natural abundance		93 %
6	D2O	natural abundance		7 %

7 3D H(CACO)NH

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 273 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	TRIS	natural abundance		10 mM
2	potassium chloride	natural abundance		20 mM
3	zif268	[U-13C; U-15N]		1 mM
4	12bp DNA	natural abundance		1.2 mM
5	H2O	natural abundance		93 %
6	D2O	natural abundance		7 %

8 15N Edited NOESY-HSQC

Instrument

Varian Uniform NMR System - 800 MHz

Sample

State isotropic, Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 273 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	TRIS	natural abundance		10 mM
2	potassium chloride	natural abundance		20 mM
3	zif268	[U-13C; U-15N]		1 mM
4	12bp DNA	natural abundance		1.2 mM
5	H2O	natural abundance		93 %
6	D2O	natural abundance		7 %

Chemical shift validation 5 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr17130_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	Warning

Disulfide bonds

None

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

None

Non-standard residues

None

Content subtype: bmr17130_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	339		98.9 (chain: 1, length: 90)
1	Chemical shift references	chemical_shift_reference_1	OK	3		No information

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: 1, Chain length: 90, Sequence coverage: 98.9%
- Total number of assignments
  - ¹³C chemical shifts: 175
  - ¹H chemical shifts: 82
  - ¹⁵N chemical shifts: 82
- Completeness of assignments
  - Entity_assemble_ID: 1
- Redox state of CYS
- Histogram of normalized assigned chemical shifts
- Random coil index and derived parameters (S² and NMR RMSD)
  - Chain_ID: 1