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BMRB: 50612

7DM4

NMR assignments of ARID4B Tudor domain

Authors

Ren, J., Yao, H., Hu, W., Feng, Y., Perrett, S., Gong, W.

Assembly

ARID4B Tudor domain

Entity

1. ARID4B Tudor domain (polymer, Thiol state: all free), 151 monomers, 16880.96 Da Detail

MKALDEPPYL TVGTDVSAKY RGAFCEAKIK TAKRLVKVKV TFRHDSSTVE VQDDHIKGPL KVGAIVEVKN LDGAYQEAVI NKLTDASWYT VVFDDGDEKT LRRSSLCLKG ERHFAESETL DQLPLTNPEH FGTPVIGKKT NRGRRSNHIP E

Formula weight

16880.96 Da

Source organism

Exptl. method

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 98.7 %, Completeness: 91.1 %, Completeness (bb): 98.2 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	91.1 % (1604 of 1760)	90.4 % (824 of 912)	91.8 % (630 of 686)	92.6 % (150 of 162)
Backbone	98.2 % (876 of 892)	98.4 % (300 of 305)	98.2 % (435 of 443)	97.9 % (141 of 144)
Sidechain	85.9 % (867 of 1009)	86.3 % (524 of 607)	87.0 % (334 of 384)	50.0 % (9 of 18)
Aromatic	33.3 % (38 of 114)	33.3 % (19 of 57)	32.1 % (18 of 56)	100.0 % (1 of 1)
Methyl	100.0 % (172 of 172)	100.0 % (86 of 86)	100.0 % (86 of 86)

1. entity 1

MKALDEPPYL TVGTDVSAKY RGAFCEAKIK TAKRLVKVKV TFRHDSSTVE VQDDHIKGPL KVGAIVEVKN LDGAYQEAVI NKLTDASWYT VVFDDGDEKT LRRSSLCLKG ERHFAESETL DQLPLTNPEH FGTPVIGKKT NRGRRSNHIP E

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

Release date

2020-12-01

Citation

Structural basis for the DNA-binding activity of human ARID4B Tudor domain
Ren, J., Yao, H., Hu, W., Perrett, S., Gong, W., Feng, Y.
J. Biol. Chem. (2021), 296, 100506-100506, PubMed 33675746 , DOI 10.1016/j.jbc.2021.100506 , Abstract

Related entities 1. ARID4B Tudor domain, : 1 : 6 : 9 entities Detail

Interaction partners 1. ARID4B Tudor domain, : 15 interactors Detail

More details for 15 interactors identified by 6 citations

Experiments performed 13 experiments Detail

1 2D 1H-15N HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

2 2D 1H-13C HSQC aliphatic

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

3 2D 1H-13C HSQC aromatic

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

4 3D CBCA(CO)NH

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

5 3D HNCACB

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

6 3D HNCO

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

7 3D HNCACO

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

8 3D HCCH-TOCSY

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

9 3D (H)CCH-TOCSY

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

10 3D C(CO)NH

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

11 3D 1H-13C NOESY aliphatic

Instrument

Bruker AVANCE III - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

12 3D 1H-13C NOESY aromatic

Instrument

Bruker AVANCE III - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

13 3D 1H-15N NOESY

Instrument

Bruker AVANCE III - 800 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 302 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	ARID4B Tudor domain	[U-99% 13C; U-99% 15N]		0.6 mM
2	D2O	[U-100% 2H]		10 %
3	DTT	natural abundance		2 mM
4	EDTA	natural abundance		2 mM
5	DSS	natural abundance		0.02 %
6	sodium phosphate	natural abundance		20 mM
7	sodium chloride	natural abundance		100 mM

Chemical shift validation 3 contents Detail

Properties

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr50612_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: bmr50612_3.str

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chemical_shifts_1	Warning	1774		98.7 (chain: 1, length: 151)
1	Chemical shift references	chem_shift_reference_1	OK	3		No information

Assigned chemical shifts

Saveframe: assigned_chemical_shifts_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: 1, Chain length: 151, Sequence coverage: 98.7%
- Total number of assignments
  - ¹H chemical shifts: 995
  - ¹³C chemical shifts: 629
  - ¹⁵N chemical shifts: 150
- Completeness of assignments
  - Entity_assemble_ID: 1
- Redox state of CYS
- Peptide bond of PRO
- Rotameric state of ILE , LEU, and VAL
- Histogram of normalized assigned chemical shifts
- Random coil index and derived parameters (S² and NMR RMSD)
  - Chain_ID: 1