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Found 1 Document (1.301 seconds)

BMRB: 19774

2MKG

Backbone chemical shifts for the tandem UIMs of wild-type RAP80.

Authors

Anamika, A., Markin, C.J., Rout, M.K., Spyracopoulos, L.

Assembly

tandem UIMs of wild-type RAP80

Entity

1. tandem UIMs of wild-type RAP80 (polymer, Thiol state: all free), 63 monomers, 7010.630 Da Detail

GPLGSRKIAQ MTEEEQFALA LKMSEQEARE VNSQEEEEEE LLRKAIAESL NSCRPSDASA TRS

Formula weight

7010.63 Da

Source organism

Homo sapiens

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 90.5 %, Completeness: 47.4 %, Completeness (bb): 84.0 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	47.4 % (334 of 704)	31.6 % (118 of 373)	61.0 % (161 of 264)	82.1 % (55 of 67)
Backbone	84.0 % (314 of 374)	82.5 % (104 of 126)	82.9 % (155 of 187)	90.2 % (55 of 61)
Sidechain	18.2 % (71 of 391)	6.1 % (15 of 247)	40.6 % (56 of 138)	0.0 % (0 of 6)
Aromatic	0.0 % (0 of 10)	0.0 % (0 of 5)	0.0 % (0 of 5)
Methyl	23.2 % (13 of 56)	10.7 % (3 of 28)	35.7 % (10 of 28)

1. entity

GPLGSRKIAQ MTEEEQFALA LKMSEQEARE VNSQEEEEEE LLRKAIAESL NSCRPSDASA TRS

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 278 K, pH 7.3, Details 50 mM TRIS, 150 mM NaCl, 2 mM DTT, pH 7.3

#	Name	Isotope labeling	Concentration
1	RAP80-tUIM	[U-100% 13C; U-100% 15N]	0.33 mM
2	TRIS	natural abundance	50 mM
3	sodium chloride	natural abundance	150 mM
4	DTT	natural abundance	2 mM
5	H2O	natural abundance	90 %
6	D2O	natural abundance	10 %

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 278 K, pH 7.3, Details 50 mM TRIS, 150 mM NaCl, 1 mM DTT, pH 7.3

#	Name	Isotope labeling	Concentration
7	RAP80-tUIM	[U-100% 13C; U-100% 15N]	1.2 mM
8	TRIS	natural abundance	50 mM
9	sodium chloride	natural abundance	150 mM
10	DTT	natural abundance	1 mM
11	H2O	natural abundance	90 %
12	D2O	natural abundance	10 %

LACS Plot; CA

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

Referencing offset: -0.07 ppm, Outliers: 1 Detail

LACS Plot; CB

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

Referencing offset: -0.07 ppm, Outliers: 1 Detail

LACS Plot; HA

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

Referencing offset: -0.01 ppm, Outliers: 2 Detail

LACS Plot; CO

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

Referencing offset: 0.12 ppm, Outliers: 2 Detail

Protein Blocks Logo

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

Release date

2014-02-05

Citation

Molecular basis for impaired DNA damage response function associated with the RAP80 ΔE81 defect
Anamika, A., Markin, C.J., Rout, M.K., Spyracopoulos, L.
J. Biol. Chem. (2014), 289, 12852-12862, PubMed 24627472 , DOI 10.1074/jbc.M113.538280 , Abstract

Entries sharing articles BMRB: 1 entries Detail

BMRB: 19773 released on 2014-02-05
Title Backbone chemical shifts for the E81 deletion mutant from RAP80 tandem UIMs

Related entities 1. tandem UIMs of wild-type RAP80, : 1 : 3 : 6 entities Detail

Interaction partners 1. tandem UIMs of wild-type RAP80, : 25 interactors Detail

More details for 25 interactors identified by 14 citations

Experiments performed 5 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 278 K, pH 7.3, Details 50 mM TRIS, 150 mM NaCl, 1 mM DTT, pH 7.3

#	Name	Isotope labeling	Concentration
7	RAP80-tUIM	[U-100% 13C; U-100% 15N]	1.2 mM
8	TRIS	natural abundance	50 mM
9	sodium chloride	natural abundance	150 mM
10	DTT	natural abundance	1 mM
11	H2O	natural abundance	90 %
12	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 278 K, pH 7.3, Details 50 mM TRIS, 150 mM NaCl, 1 mM DTT, pH 7.3

#	Name	Isotope labeling	Concentration
7	RAP80-tUIM	[U-100% 13C; U-100% 15N]	1.2 mM
8	TRIS	natural abundance	50 mM
9	sodium chloride	natural abundance	150 mM
10	DTT	natural abundance	1 mM
11	H2O	natural abundance	90 %
12	D2O	natural abundance	10 %

3 3D HNCACB

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 278 K, pH 7.3, Details 50 mM TRIS, 150 mM NaCl, 1 mM DTT, pH 7.3

#	Name	Isotope labeling	Concentration
7	RAP80-tUIM	[U-100% 13C; U-100% 15N]	1.2 mM
8	TRIS	natural abundance	50 mM
9	sodium chloride	natural abundance	150 mM
10	DTT	natural abundance	1 mM
11	H2O	natural abundance	90 %
12	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 278 K, pH 7.3, Details 50 mM TRIS, 150 mM NaCl, 2 mM DTT, pH 7.3

#	Name	Isotope labeling	Concentration
1	RAP80-tUIM	[U-100% 13C; U-100% 15N]	0.33 mM
2	TRIS	natural abundance	50 mM
3	sodium chloride	natural abundance	150 mM
4	DTT	natural abundance	2 mM
5	H2O	natural abundance	90 %
6	D2O	natural abundance	10 %

5 3D 1H-15N TOCSY

Instrument

Varian INOVA - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 278 K, pH 7.3, Details 50 mM TRIS, 150 mM NaCl, 2 mM DTT, pH 7.3

#	Name	Isotope labeling	Concentration
1	RAP80-tUIM	[U-100% 13C; U-100% 15N]	0.33 mM
2	TRIS	natural abundance	50 mM
3	sodium chloride	natural abundance	150 mM
4	DTT	natural abundance	2 mM
5	H2O	natural abundance	90 %
6	D2O	natural abundance	10 %

NMR combined restraints 4 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints, Dihedral angle restraints	combined_19774_2mkg.nef
Input source #2: Coordindates	2mkg.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

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

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	63	0	0	100.0

Content subtype: combined_19774_2mkg.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	OK	311		90.5 (chain: A, length: 63)
1	Distance restraints	CNS/XPLOR_distance_constraints_2	OK	76 (1)	noe	57.1 (chain: A, length: 63)
1	Dihedral angle restraints	CNS/XPLOR_dihedral_3	OK	124 (124)	.	92.1 (chain: A, length: 63)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: OK
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 63, Sequence coverage: 90.5%
- Total number of assignments
  - ¹H chemical shifts: 104
  - ¹³C chemical shifts: 152
  - ¹⁵N chemical shifts: 55
- Completeness of assignments
- Peptide bond of PRO
- 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_2
- Status: OK
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 63, Sequence coverage: 57.1%
- Total number of restraints: 76
- Weight of restraints: 1.0 (76)
- Potential type of restraints: square-well-parabolic (76)
- Range of distance target values: 2.35, 3.4 (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

Dihedral angle restraints

Saveframe: CNS/XPLOR_dihedral_3
- Status: OK
- Experiment type: .
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 63, Sequence coverage: 92.1%
- Total number of restraints: 124
- Total number of restraints per polymer type: 124
- Weight of restraints: 1.0 (124)
- Potential type of restraints: square-well-parabolic (124)
- Plot of Phi-Psi angle restraints
- Dihedral angle restraints per residue
  - Chain_ID: A

Keywords PROTEIN

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Sequence chart about top aligned regions

Sequence chart about interacting regions

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Found 1 Document (1.301 seconds)

BMRB: 19774

Sample #1

Sample #2

Chemical shift reference

Chemical shift reference

Chemical shift reference

Chemical shift reference

Entries sharing articles BMRB: 1 entries Detail

Related entities 1. tandem UIMs of wild-type RAP80, : 1 : 3 : 6 entities Detail

Interaction partners 1. tandem UIMs of wild-type RAP80, : 25 interactors Detail

Experiments performed 5 experiments Detail

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

NMR combined restraints 4 contents Detail