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BMRB: 11497

2RSO

Solution structure of the chromodomain of Swi6

Authors

Shimojo, H., Nishimura, Y.

Assembly

the chromodomain of Swi6

Entity

1. the chromodomain of Swi6 (polymer, Thiol state: all free), 92 monomers, 10487.20 Da Detail

GSHMESKSSS KKLKENAKEE EGGEEEEEDE YVVEKVLKHR MARKGGGYEY LLKWEGYDDP SDNTWSSEAD CSGCKQLIEA YWNEHGGRPE PS

Formula weight

10487.2 Da

Source organism

Schizosaccharomyces pombe

Exptl. method

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 97.8 %, Completeness: 95.1 %, Completeness (bb): 95.2 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	95.1 % (997 of 1048)	94.8 % (526 of 555)	96.0 % (381 of 397)	93.8 % (90 of 96)
Backbone	95.2 % (520 of 546)	94.2 % (180 of 191)	96.2 % (256 of 266)	94.4 % (84 of 89)
Sidechain	95.4 % (557 of 584)	95.1 % (346 of 364)	96.2 % (205 of 213)	85.7 % (6 of 7)
Aromatic	90.9 % (80 of 88)	90.9 % (40 of 44)	90.2 % (37 of 41)	100.0 % (3 of 3)
Methyl	97.8 % (45 of 46)	95.7 % (22 of 23)	100.0 % (23 of 23)

1. entity

GSHMESKSSS KKLKENAKEE EGGEEEEEDE YVVEKVLKHR MARKGGGYEY LLKWEGYDDP SDNTWSSEAD CSGCKQLIEA YWNEHGGRPE PS

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

LACS Plot; CA

Referencing offset: -0.1 ppm, Outliers: 1 Detail

LACS Plot; CB

Referencing offset: -0.1 ppm, Outliers: 1 Detail

LACS Plot; HA

Referencing offset: 0.04 ppm, Outliers: 2 Detail

LACS Plot; CO

Referencing offset: -0.13 ppm, Outliers: 3 Detail

Protein Blocks Logo

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

Release date

2012-08-26

Citation

Intrinsic nucleic acid-binding activity of Chp1 chromodomain is required for heterochromatic gene silencing
Ishida, M., Shimojo, H., Hayashi, A., Kawaguchi, R., Ohtani, Y., Uegaki, K., Nishimura, Y., Nakayama, J.
Mol. Cell (2012), 47, 228-241, PubMed 22727667 , DOI 10.1016/j.molcel.2012.05.017 , Abstract

Related entities 1. the chromodomain of Swi6, : 1 : 2 : 13 entities Detail

Interaction partners 1. the chromodomain of Swi6, : 11 interactors Detail

More details for 11 interactors identified by 7 citations

Experiments performed 14 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 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

2 2D 1H-13C HSQC aliphatic

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

3 2D 1H-13C HSQC aromatic

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

4 3D HNCO

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

5 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 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

6 3D HNCACB

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

7 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 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

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 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

9 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 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

10 3D HCCH-TOCSY

Instrument

Bruker Avance - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

11 3D HCCH-COSY

Instrument

Bruker Avance - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

12 3D 1H-15N NOESY

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

13 3D 1H-13C NOESY aliphatic

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

14 3D 1H-13C NOESY aromatic

Instrument

Bruker Avance - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.8

#	Name	Isotope labeling	Type	Concentration
1	Swi6-CD	[U-99% 13C; U-99% 15N]	protein	0.3 ~ 0.5 mM
2	potassium chloride	natural abundance		10 mM
3	sodium phosphate	natural abundance		20 mM
4	DTT	[U-100% 2H]		5 mM
5	H2O		solvent	90 %
6	D2O		solvent	10 %

nullKeywords chromatin, chromodomain, Chromosomal protein, Methylation, Silencing