BMRBj - BMREntryMaster

Found 1 Document (1.076 seconds)

BMRB: 17832

2LH0

1H, 15N and 13C resonance assignments for the N-terminal dimeric region of budding yeast histone chaperone Rtt106

Authors

Hu, Q., Cui, G., Mer, G.

Assembly

HISTONE CHAPERONE RTT106

Entity

1. HISTONE CHAPERONE RTT106 (polymer, Thiol state: not present), 70 monomers, 8116.068 × 2 Da Detail

GHMMSKLFLD ELPESLSRKI GTVVRVLPSS LEIFEELYKY ALNENSNDRS EHHKKPRIDD SSDLLKTDEI

Total weight

16232.136 Da

Max. entity weight

8116.068 Da

Source organism

Saccharomyces cerevisiae

Exptl. method

solution NMR

Refine. method

SIMULATED ANNEALING

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 97.1 %, Completeness: 87.9 %, Completeness (bb): 94.0 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	87.9 % (734 of 835)	86.6 % (380 of 439)	88.0 % (287 of 326)	95.7 % (67 of 70)
Backbone	94.0 % (389 of 414)	89.2 % (124 of 139)	96.6 % (201 of 208)	95.5 % (64 of 67)
Sidechain	84.3 % (412 of 489)	85.3 % (256 of 300)	82.3 % (153 of 186)	100.0 % (3 of 3)
Aromatic	35.4 % (17 of 48)	70.8 % (17 of 24)	0.0 % (0 of 24)
Methyl	97.3 % (72 of 74)	94.6 % (35 of 37)	100.0 % (37 of 37)

1. HISTONE CHAPERONE RTT106

GHMMSKLFLD ELPESLSRKI GTVVRVLPSS LEIFEELYKY ALNENSNDRS EHHKKPRIDD SSDLLKTDEI

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
6	HISTONE CHAPERONE RTT106	[U-100% 15N]	1 mM
7	H2O	natural abundance	90 %
8	D2O	natural abundance	10 %
9	NaCl	natural abundance	30 mM
10	Sodium Phosphate	natural abundance	20 mM

Sample #3

Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95, Details 1.2 mM MIXTURE OF 15N/13C- LABELED AND UNLABELED PROTEIN

#	Name	Isotope labeling	Concentration
11	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.6 mM
12	HISTONE CHAPERONE RTT106	natural abundance	0.6 mM
13	D2O	natural abundance	100 %
14	NaCl	natural abundance	30 mM
15	Sodium Phosphate	natural abundance	20 mM

LACS Plot; CA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: 2.68 ppm, Outliers: 4 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: 2.68 ppm, Outliers: 4 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: 0.11 ppm, Outliers: 1 Detail

LACS Plot; CO

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: 2.86 ppm, Outliers: 1 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 2LH0, Strand ID: A, B Detail

Release date

2012-01-24

Citation

Structural basis for recognition of H3K56-acetylated histone H3-H4 by the chaperone Rtt106
Su, D., Hu, Q., Li, Q., Thompson, J.R., Cui, G., Fazly, A., Davies, B.A., Botuyan, M.V., Zhang, Z., Mer, G.
Nature (2012), 483, 104-107, PubMed 22307274 , DOI 10.1038/nature10861 , Abstract

Related entities 1. HISTONE CHAPERONE RTT106, : 1 : 3 : 7 entities Detail

Interaction partners 1. HISTONE CHAPERONE RTT106, : 29 interactors Detail

More details for 29 interactors identified by 6 citations

Experiments performed 15 experiments Detail

1 2D 1H-15N HSQC

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

2 2D 1H-1H NOESY

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

3 3D CBCA(CO)NH

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

4 3D HNCO

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

5 3D HNCACB

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

6 3D HBHA(CO)NH

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

7 3D H(CCO)NH

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

8 3D C(CO)NH

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

9 3D 1H- 15N NOESY

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

10 3D 1H-13C NOESY

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

11 3D HCACO

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

12 2D 1H-13C HSQC

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
1	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.8 mM
2	H2O	natural abundance	90 %
3	D2O	natural abundance	10 %
4	NaCl	natural abundance	30 mM
5	Sodium Phosphate	natural abundance	20 mM

13 2D 13C- FILTERED-EDITED NOESY

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 100% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95, Details 1.2 mM MIXTURE OF 15N/13C- LABELED AND UNLABELED PROTEIN

#	Name	Isotope labeling	Concentration
11	HISTONE CHAPERONE RTT106	[U-100% 13C; U-100% 15N]	0.6 mM
12	HISTONE CHAPERONE RTT106	natural abundance	0.6 mM
13	D2O	natural abundance	100 %
14	NaCl	natural abundance	30 mM
15	Sodium Phosphate	natural abundance	20 mM

14 2D 1H-15N HSQC

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
6	HISTONE CHAPERONE RTT106	[U-100% 15N]	1 mM
7	H2O	natural abundance	90 %
8	D2O	natural abundance	10 %
9	NaCl	natural abundance	30 mM
10	Sodium Phosphate	natural abundance	20 mM

15 3D 1H-15N NOESY

Instrument

Bruker AVANCE - 700 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.95

#	Name	Isotope labeling	Concentration
6	HISTONE CHAPERONE RTT106	[U-100% 15N]	1 mM
7	H2O	natural abundance	90 %
8	D2O	natural abundance	10 %
9	NaCl	natural abundance	30 mM
10	Sodium Phosphate	natural abundance	20 mM

NMR combined restraints 6 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints, Dihedral angle restraints	combined_17832_2lh0.nef
Input source #2: Coordindates	2lh0.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

-----------10--------20--------30--------40--------50--------60-------
GHMMSKLFLDELPESLSRKIGTVVRVLPSSLEIFEELYKYALNENSNDRSEHHKKPRIDDSSDLLKTDEI
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
GHMMSKLFLDELPESLSRKIGTVVRVLPSSLEIFEELYKYALNENSNDRSEHHKKPRIDDSSDLLKTDEI
--------10--------20--------30--------40--------50--------60--------70

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

--70-------80--------90-------100-------110-------120-------130-------
GHMMSKLFLDELPESLSRKIGTVVRVLPSSLEIFEELYKYALNENSNDRSEHHKKPRIDDSSDLLKTDEI
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
GHMMSKLFLDELPESLSRKIGTVVRVLPSSLEIFEELYKYALNENSNDRSEHHKKPRIDDSSDLLKTDEI
--------10--------20--------30--------40--------50--------60--------70

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	70	0	0	100.0
B	B	70	0	0	100.0

Content subtype: combined_17832_2lh0.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	733		97.1 (chain: A, length: 70)
1	Distance restraints	CNS/XPLOR_distance_constraints_2	OK	1502 (1)	noe	77.1 (chain: A, length: 70), 77.1 (chain: B, length: 70)
2	Distance restraints	CNS/XPLOR_distance_constraints_3	Warning	112 (1)	noe	24.3 (chain: A, length: 70), 24.3 (chain: B, length: 70)
3	Distance restraints	CNS/XPLOR_distance_constraints_4	Warning	48 (1)	hbond	25.7 (chain: A, length: 70), 25.7 (chain: B, length: 70)
1	Dihedral angle restraints	CNS/XPLOR_dihedral_5	OK	112 (112)	.	45.7 (chain: A, length: 70), 45.7 (chain: B, length: 70)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 70, Sequence coverage: 97.1%
- Total number of assignments
  - ¹³C chemical shifts: 286
  - ¹H chemical shifts: 381
  - ¹⁵N chemical shifts: 66
- 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

Comp_index_ID	Comp_ID	Atom_ID	CS value (ppm)
27	SER	HG	4.909

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	326	286	87.7
¹H chemical shifts	439	380	86.6
¹⁵N chemical shifts	74	66	89.2

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	140	134	95.7
¹H chemical shifts	139	128	92.1
¹⁵N chemical shifts	67	63	94.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	186	152	81.7
¹H chemical shifts	300	252	84.0
¹⁵N chemical shifts	7	3	42.9

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	39	37	94.9
¹H chemical shifts	39	35	89.7

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹³C chemical shifts	24	0	0.0
¹H chemical shifts	24	17	70.8

Distance restraints

Saveframe: CNS/XPLOR_distance_constraints_2
- Status: OK
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 70, Sequence coverage: 77.1%
  - Entity_assembly_ID: B, Chain length: 70, Sequence coverage: 77.1%
- Total number of restraints: 1500
- Weight of restraints: 1.0 (1500)
- Potential type of restraints: square-well-parabolic (1500)
- Range of distance target values: 2.4, 4.4 (Å)
- Histogram of distance target values
- Histogram of discrepancy in distance target values
- Distance restraints per residue
  - Chain_ID: A
  - Chain_ID: B
- Distance restraints on contact map
- Saveframe: CNS/XPLOR_distance_constraints_3
  - Status: Warning
  - Experiment type: noe
  - Sequence coverage of experimental data
    - Entity_assembly_ID: A, Chain length: 70, Sequence coverage: 24.3%
    - Entity_assembly_ID: B, Chain length: 70, Sequence coverage: 24.3%
  - Total number of restraints: 112
  - Weight of restraints: 1.0 (112)
  - Potential type of restraints: square-well-parabolic (112)
  - Range of distance target values: 2.9, 3.9 (Å)
  - Histogram of distance target values
  - Histogram of discrepancy in distance target values
  - Distance restraints per residue
    - Chain_ID: A
    - Chain_ID: B
  - Distance restraints on contact map
  - Saveframe: CNS/XPLOR_distance_constraints_4
    - Status: Warning
    - Experiment type: hbond
    - Sequence coverage of experimental data
      - Entity_assembly_ID: A, Chain length: 70, Sequence coverage: 25.7%
      - Entity_assembly_ID: B, Chain length: 70, Sequence coverage: 25.7%
    - Total number of restraints: 48
    - Weight of restraints: 1.0 (48)
    - Potential type of restraints: square-well-parabolic (48)
    - Range of distance target values: 2.05, 3.05 (Å)
    - Histogram of distance target values
    - Distance restraints per residue
      - Chain_ID: A
      - Chain_ID: B
    - Distance restraints on contact map

Dihedral angle restraints

Saveframe: CNS/XPLOR_dihedral_5
- Status: OK
- Experiment type: .
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 70, Sequence coverage: 45.7%
  - Entity_assembly_ID: B, Chain length: 70, Sequence coverage: 45.7%
- Total number of restraints: 112
- Total number of restraints per polymer type: 112
- Weight of restraints: 1.0 (112)
- Potential type of restraints: square-well-parabolic (112)
- Plot of Phi-Psi angle restraints
- Dihedral angle restraints per residue

Keywords CHAPERONE, CHROMOSOMAL PROTEIN, HISTONE CHAPERONE, NUCLEUS, PHOSPHOPROTEIN, TRANSCRIPTION, TRANSCRIPTION REGULATION, TRANSPOSITION

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Found 1 Document (1.076 seconds)

BMRB: 17832

Sample #1

Sample #2

Sample #3

Chemical shift reference

Chemical shift reference

Chemical shift reference

Chemical shift reference

Related entities 1. HISTONE CHAPERONE RTT106, : 1 : 3 : 7 entities Detail

Interaction partners 1. HISTONE CHAPERONE RTT106, : 29 interactors Detail

Experiments performed 15 experiments Detail

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NMR combined restraints 6 contents Detail