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BMRB: 16246

2KH9

Resonance Assignments for Yeast Prp24-RRM2

Authors

Martin-Tumasz, S.A., Reiter, N.J., Butcher, S.E.

Assembly

Prp24-RRM2

Entity

1. Prp24-RRM2 (polymer, Thiol state: not reported), 92 monomers, 10824.24 Da Detail

MTECTLWMTN FPPSYTQRNI RDLLQDINVV ALSIRLPSLR FNTSRRFAYI DVTSKEDARY CVEKLNGLKI EGYTLVTKVS NPLELEHHHH HH

Formula weight

10824.24 Da

Source organism

Saccharomyces cerevisiae

Exptl. method

Refine. method

simulated annealing, torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 92.4 %, Completeness: 73.6 %, Completeness (bb): 77.8 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	73.6 % (816 of 1108)	77.0 % (443 of 575)	65.8 % (287 of 436)	88.7 % (86 of 97)
Backbone	77.8 % (423 of 544)	86.3 % (157 of 182)	67.9 % (186 of 274)	90.9 % (80 of 88)
Sidechain	72.8 % (476 of 654)	72.8 % (286 of 393)	73.0 % (184 of 252)	66.7 % (6 of 9)
Aromatic	9.2 % (9 of 98)	10.2 % (5 of 49)	8.3 % (4 of 48)	0.0 % (0 of 1)
Methyl	90.9 % (100 of 110)	89.1 % (49 of 55)	92.7 % (51 of 55)

1. Prp24-RRM2

MTECTLWMTN FPPSYTQRNI RDLLQDINVV ALSIRLPSLR FNTSRRFAYI DVTSKEDARY CVEKLNGLKI EGYTLVTKVS NPLELEHHHH HH

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	Prp24-RRM2	[U-99% 13C; U-99% 15N]		500 mM
2	TRIS	natural abundance		10 mM
3	potassium chloride	natural abundance		50 mM
4	DTT	natural abundance		1 mM
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 7

#	Name	Isotope labeling	Type	Concentration
7	Prp24-RRM2	[U-99% 13C; U-99% 15N]		500 uM
8	TRIS	natural abundance		10 mM
9	potassium chloride	natural abundance		50 mM
10	DTT	natural abundance		1 mM
11	DSS	natural abundance		10 uM

LACS Plot; CA

Referencing offset: -0.12 ppm, Outliers: 1 Detail

LACS Plot; CB

Referencing offset: -0.12 ppm, Outliers: 1 Detail

LACS Plot; HA

Referencing offset: -0.02 ppm, Outliers: 2 Detail

Protein Blocks Logo

Calculated from 10 models in PDB: 2KH9, Strand ID: A Detail

Release date

2009-09-03

Citation

(1)H, (13)C and (15)N resonance assignments of a ribonucleoprotein complex consisting of Prp24-RRM2 bound to a fragment of U6 RNA
Martin-Tumasz, S., Butcher, S.E.
Biomol. NMR Assign. (2009), 3, 227-230, PubMed 19693704 , DOI 10.1007/s12104-009-9181-5 , Abstract

Entries sharing articles BMRB: 3 entries Detail

  BMRB: 16230 released on 2009-09-03
    Title Solution Structure of Yeast Prp24-RRM2 Bound to a Fragment of U6 RNA
  BMRB: 16243 released on 2009-09-03
    Title Backbone NH Assignments for Prp24-RRM23
  BMRB: 16244 released on 2009-09-03
    Title Backbone NH Assignments for Prp24-RRM23 Bound to AGAGAU RNA

Related entities 1. Prp24-RRM2, : 1 : 99 entities Detail

Interaction partners 1. Prp24-RRM2, : 17 interactors Detail

More details for 17 interactors identified by 8 citations

Experiments performed 8 experiments Detail

1 2D 1H-15N HSQC

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	Prp24-RRM2	[U-99% 13C; U-99% 15N]		500 mM
2	TRIS	natural abundance		10 mM
3	potassium chloride	natural abundance		50 mM
4	DTT	natural abundance		1 mM
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

2 3D CBCA(CO)NH

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	Prp24-RRM2	[U-99% 13C; U-99% 15N]		500 mM
2	TRIS	natural abundance		10 mM
3	potassium chloride	natural abundance		50 mM
4	DTT	natural abundance		1 mM
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

3 3D C(CO)NH

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	Prp24-RRM2	[U-99% 13C; U-99% 15N]		500 mM
2	TRIS	natural abundance		10 mM
3	potassium chloride	natural abundance		50 mM
4	DTT	natural abundance		1 mM
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

4 3D HNCO

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	Prp24-RRM2	[U-99% 13C; U-99% 15N]		500 mM
2	TRIS	natural abundance		10 mM
3	potassium chloride	natural abundance		50 mM
4	DTT	natural abundance		1 mM
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

5 3D HNCACB

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	Prp24-RRM2	[U-99% 13C; U-99% 15N]		500 mM
2	TRIS	natural abundance		10 mM
3	potassium chloride	natural abundance		50 mM
4	DTT	natural abundance		1 mM
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

6 3D HBHA(CO)NH

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	Prp24-RRM2	[U-99% 13C; U-99% 15N]		500 mM
2	TRIS	natural abundance		10 mM
3	potassium chloride	natural abundance		50 mM
4	DTT	natural abundance		1 mM
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

7 3D HCCH-TOCSY

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	Prp24-RRM2	[U-99% 13C; U-99% 15N]		500 mM
2	TRIS	natural abundance		10 mM
3	potassium chloride	natural abundance		50 mM
4	DTT	natural abundance		1 mM
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

8 3D H(CCO)NH

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298.15 K, pH 7

#	Name	Isotope labeling	Type	Concentration
1	Prp24-RRM2	[U-99% 13C; U-99% 15N]		500 mM
2	TRIS	natural abundance		10 mM
3	potassium chloride	natural abundance		50 mM
4	DTT	natural abundance		1 mM
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

NMR combined restraints 6 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints, Dihedral angle restraints, RDC restraints	combined_16246_2kh9.nef
Input source #2: Coordindates	2kh9.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	Error

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

----120-------130-------140-------150-------160-------170-------180-------190-------200-----
MTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLELEHHHHHH
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
MTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLELEHHHHHH
--------10--------20--------30--------40--------50--------60--------70--------80--------90--

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

-50---
AGAGAU
||||||
AGAGAU
------

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	92	0	0	100.0
B	B	6	0	0	100.0

Content subtype: combined_16246_2kh9.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	765		89.1 (chain: A, length: 92)
1	Distance restraints	CNS/XPLOR_distance_constraints_4	Error	2577 (1)	noe	90.2 (chain: A, length: 92), 100.0 (chain: B, length: 6)
2	Distance restraints	CNS/XPLOR_distance_constraints_2	Error	49 (1)	hbond	43.5 (chain: A, length: 92), 50.0 (chain: B, length: 6)
1	Dihedral angle restraints	CNS/XPLOR_dihedral_5	OK	137 (137)	.	77.2 (chain: A, length: 92), 100.0 (chain: B, length: 6)
1	RDC restraints	CNS/XPLOR_dipolar_coupling_6	OK	130 (130)	.	85.9 (chain: A, length: 92)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 92, Sequence coverage: 89.1%
- Total number of assignments
  - ¹H chemical shifts: 426
  - ¹³C chemical shifts: 256
  - ¹⁵N chemical shifts: 83
- Completeness of assignments
  - Entity_assemble_ID: A
- 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: A

Distance restraints

Saveframe: CNS/XPLOR_distance_constraints_4
- Status: Error
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 92, Sequence coverage: 90.2%
  - Entity_assembly_ID: B, Chain length: 6, Sequence coverage: 100.0%
- Total number of restraints: 2526
- Weight of restraints: 1.0 (2526)
- Potential type of restraints: square-well-parabolic (2526)
- Range of distance target values: 2.55, 9.0 (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_2
  - Status: Error
  - Experiment type: hbond
  - Sequence coverage of experimental data
    - Entity_assembly_ID: A, Chain length: 92, Sequence coverage: 43.5%
    - Entity_assembly_ID: B, Chain length: 6, Sequence coverage: 50.0%
  - Total number of restraints: 49
  - Weight of restraints: 1.0 (49)
  - Potential type of restraints: square-well-parabolic (49)
  - Range of distance target values: 2.0, 3.0 (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: 92, Sequence coverage: 77.2%
  - Entity_assembly_ID: B, Chain length: 6, Sequence coverage: 100.0%
- Total number of restraints: 137
- Total number of restraints per polymer type: 137
- Weight of restraints: 1.0 (137)
- Potential type of restraints: square-well-parabolic (137)
- Plot of Phi-Psi angle restraints
- Dihedral angle restraints per residue
  - Chain_ID: A
  - Chain_ID: B

RDC restraints

Saveframe: CNS/XPLOR_dipolar_coupling_6

Status: OK
Experiment type: .

Sequence coverage of experimental data

Entity_assembly_ID: A, Chain length: 92, Sequence coverage: 85.9%

----120-------130-------140-------150-------160-------170-------180-------190-------200-----
MTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLELEHHHHHH
  ||||||||| |||||||||||||| |||||||||||||| | |||||||||||||||||||||||||||||||||||| |||||      
..ECTLWMTNF.PSYTQRNIRDLLQD.NVVALSIRLPSLRF.T.RRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVS.PLELE      
----120-------130-------140-------150-------160-------170-------180-------190---------

Total number of restraints: 130
Potential type of restraints: undefined (130)
Range of observed RDC values: 100.0, -100.0 (Hz)
RDC restraints per residue
- Chain_ID: A
  None

Keywords Protein/RNA, RRM, snRNP, Splicing