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BMRB: 18906

2N5N

1H, 13C and 15N resonance assignments of an N-terminal domain of CHD4

Authors

Silva, A.PG., Mackay, J.P.

Assembly

CHD4

Entity

1. CHD4 (polymer, Thiol state: not present), 86 monomers, 9557.742 Da Detail

GPLGSSKEPK SSAQLLEDWG MEDIDHVFSE EDYRTLTNYK AFSQFVRPLI AAKNPKIAVS KMMMVLGAKW REFSTNNPFK GSSGAS

Formula weight

9557.742 Da

Source organism

Exptl. method

Refine. method

DGSA-distance geometry simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 91.9 %, Completeness: 85.0 %, Completeness (bb): 86.2 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	85.0 % (856 of 1007)	90.1 % (475 of 527)	78.3 % (306 of 391)	84.3 % (75 of 89)
Backbone	86.2 % (436 of 506)	85.5 % (148 of 173)	87.3 % (220 of 252)	84.0 % (68 of 81)
Sidechain	85.4 % (496 of 581)	92.4 % (327 of 354)	74.0 % (162 of 219)	87.5 % (7 of 8)
Aromatic	45.7 % (43 of 94)	87.2 % (41 of 47)	0.0 % (0 of 45)	100.0 % (2 of 2)
Methyl	98.6 % (71 of 72)	100.0 % (36 of 36)	97.2 % (35 of 36)

1. CHD4

GPLGSSKEPK SSAQLLEDWG MEDIDHVFSE EDYRTLTNYK AFSQFVRPLI AAKNPKIAVS KMMMVLGAKW REFSTNNPFK GSSGAS

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

LACS Plot; CA

Referencing offset: -0.15 ppm, Outliers: 2 Detail

LACS Plot; CB

Referencing offset: -0.15 ppm, Outliers: 2 Detail

LACS Plot; HA

Referencing offset: 0.08 ppm, Outliers: 1 Detail

LACS Plot; CO

Referencing offset: 0.1 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 2N5N, Strand ID: A Detail

Release date

2013-02-19

Citation

¹H, ¹³C and ¹⁵N resonance assignments of an N-terminal domain of CHD4
Silva, A.PG., Kwan, A.H., Mackay, J.P.
Biomol. NMR Assign. (2014), 8, 137-139, PubMed 23417793 , DOI 10.1007/s12104-013-9469-3 , Abstract

Related entities 1. CHD4, : 5 : 21 entities Detail

Interaction partners 1. CHD4, : 24 interactors Detail

More details for 24 interactors identified by 14 citations

Experiments performed 13 experiments Detail

1 2D 1H-15N HSQC

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

2 2D 1H-1H TOCSY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

3 2D DQF-COSY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

4 3D CBCA(CO)NH

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

5 3D HNCO

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

6 2D 1H-13C HSQC

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

7 3D HNCACB

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

8 3D HBHA(CO)NH

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

9 3D HNHA

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

10 3D C(CO)NH

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

11 2D 1H-13C HSQC

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

12 3D HCCH-TOCSY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

13 3D H(CCO)NH

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	CHD4	[U-100% 13C; U-100% 15N]		350 uM
2	sodium phosphate	natural abundance		20 mM
3	sodium chloride	natural abundance		150 mM
4	D2O	natural abundance		5 %
5	DSS	natural abundance		0.2 mM

NMR combined restraints 3 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints	combined_18906_2n5n.nef
Input source #2: Coordindates	2n5n.cif
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

Sequence alignments

Entity_assembly_ID (NMR): A vs Auth_asym_ID (model): A

140-----150-------160-------170-------180-------190-------200-------210-------220-----
GPLGSSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGAS
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
GPLGSSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGAS
--------10--------20--------30--------40--------50--------60--------70--------80------

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	86	0	0	100.0

Content subtype: combined_18906_2n5n.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	856		90.7 (chain: A, length: 86)
1	Distance restraints	DYANA/DIANA_distance_constraints_2	OK	1885 (1)	noe	86.0 (chain: A, length: 86)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 86, Sequence coverage: 90.7%
- Total number of assignments
  - ¹H chemical shifts: 476
  - ¹³C chemical shifts: 306
  - ¹⁵N chemical shifts: 74
- Completeness of assignments
  - Entity_assemble_ID: A
- 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: A

Distance restraints

Saveframe: DYANA/DIANA_distance_constraints_2
- Status: OK
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 86, Sequence coverage: 86.0%
- Total number of restraints: 1885
- Weight of restraints: 1.0 (1885)
- Potential type of restraints: upper-bound-parabolic (1885)
- Range of distance target values: 2.17, 5.5 (Å)
- Histogram of distance target values
- Histogram of discrepancy in distance target values
- Distance restraints per residue
  - Chain_ID: A
- Distance restraints on contact map

Keywords CHD4, chromatin remodeling, N-terminal domain, NuRD, PAR-binding motif