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BMRB: 25493

5ODD

Human Med26 N-Terminal Domain (1-92)

Authors

Peruzzini, R., Landrieu, I., Villeret, V., Lens, Z., Cantrelle, F.

Assembly

Human Med26 N-Terminal Domain (1-92)

Entity

1. Human Med26 N-Terminal Domain (1-92) (polymer, Thiol state: not present), 93 monomers, 10595.18 Da Detail

GMTAAPASPQ QIRDRLLQAI DPQSNIRNMV AVLEVISSLE KYPITKEALE ETRLGKLIND VRKKTKNEEL AKRAKKLLRS WQKLIEPAHQ HEA

Formula weight

10595.18 Da

Source organism

Exptl. method

Refine. method

molecular dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 97.8 %, Completeness: 85.0 %, Completeness (bb): 96.0 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	85.0 % (957 of 1126)	76.6 % (458 of 598)	93.9 % (403 of 429)	97.0 % (96 of 99)
Backbone	96.0 % (526 of 548)	94.0 % (172 of 183)	96.8 % (268 of 277)	97.7 % (86 of 88)
Sidechain	77.9 % (521 of 669)	68.9 % (286 of 415)	92.6 % (225 of 243)	90.9 % (10 of 11)
Aromatic	71.4 % (20 of 28)	78.6 % (11 of 14)	61.5 % (8 of 13)	100.0 % (1 of 1)
Methyl	99.1 % (115 of 116)	98.3 % (57 of 58)	100.0 % (58 of 58)

1. entity

GMTAAPASPQ QIRDRLLQAI DPQSNIRNMV AVLEVISSLE KYPITKEALE ETRLGKLIND VRKKTKNEEL AKRAKKLLRS WQKLIEPAHQ HEA

Show sample condition

Sample #1

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

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-100% 15N]		0.4 ~ 1.4 mM
2	HEPES	natural abundance		50 mM
3	sodium chloride	natural abundance		100 mM
4	DTT	natural abundance		1 mM
5	EDTA	natural abundance		2.5 mM
6	H2O	natural abundance		90 %
7	D2O	natural abundance		10 %

Sample #2

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

#	Name	Isotope labeling	Type	Concentration
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

LACS Plot; CA

Referencing offset: -0.4 ppm, Outliers: 2 Detail

LACS Plot; CB

Referencing offset: -0.4 ppm, Outliers: 2 Detail

LACS Plot; HA

Referencing offset: 0.05 ppm, Outliers: 1 Detail

LACS Plot; CO

Referencing offset: -0.14 ppm, Outliers: 1 Detail

Protein Blocks Logo

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

Release date

2016-06-29

Citation

1H, 15N and 13C assignments of the N-terminal domain of the Mediator complex subunit MED26
Peruzzini, R., Lens, Z., Verger, A., Dewitte, F., Ferreira, E., Baert, J., Villeret, V., Landrieu, I., Cantrelle, F.
Biomol. NMR Assign. (2016), 10, 233-236, PubMed 26861138 , DOI 10.1007/s12104-016-9673-z , Abstract

Related entities 1. Human Med26 N-Terminal Domain (1-92), : 2 : 21 entities Detail

Interaction partners 1. Human Med26 N-Terminal Domain (1-92), : 29 interactors Detail

More details for 29 interactors identified by 8 citations

Experiments performed 11 experiments Detail

1 2D 1H-15N HSQC

Instrument

Bruker Avance - 900 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	entity	[U-100% 15N]		0.4 ~ 1.4 mM
2	HEPES	natural abundance		50 mM
3	sodium chloride	natural abundance		100 mM
4	DTT	natural abundance		1 mM
5	EDTA	natural abundance		2.5 mM
6	H2O	natural abundance		90 %
7	D2O	natural abundance		10 %

2 2D 1H-13C HSQC aliphatic

Instrument

Bruker Avance - 900 MHz

Sample

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

#	Name	Isotope labeling	Type	Concentration
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

3 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
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

4 3D HN(CO)CA

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
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

5 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
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

6 3D HNHA

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
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

7 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
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

8 3D 1H-15N TOCSY

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
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

9 3D 1H-13C NOESY aliphatic

Instrument

Bruker Avance - 900 MHz

Sample

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

#	Name	Isotope labeling	Type	Concentration
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

10 2D 1H-13C HSQC aromatic

Instrument

Bruker Avance - 900 MHz

Sample

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

#	Name	Isotope labeling	Type	Concentration
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

11 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
8	entity	[U-100% 13C; U-100% 15N]		0.4 ~ 1.4 mM
9	HEPES	natural abundance		50 mM
10	sodium chloride	natural abundance		100 mM
11	DTT	natural abundance		1 mM
12	EDTA	natural abundance		2.5 mM
13	H2O	natural abundance		90 %
14	D2O	natural abundance		10 %

NMR combined restraints 5 contents Detail

Properties

Input source #1: NMR data (NEF) - Assigned chemical shifts, Distance restraints, Dihedral angle restraints	combined_25493_5odd.nef
Input source #2: Coordindates	5odd.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--------70--------80--------90--
MTAAPASPQQIRDRLLQAIDPQSNIRNMVAVLEVISSLEKYPITKEALEETRLGKLINDVRKKTKNEELAKRAKKLLRSWQKLIEPAHQHEA
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
MTAAPASPQQIRDRLLQAIDPQSNIRNMVAVLEVISSLEKYPITKEALEETRLGKLINDVRKKTKNEELAKRAKKLLRSWQKLIEPAHQHEA

Chain assignments

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

Content subtype: combined_25493_5odd.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	954		98.9 (chain: A, length: 92)
1	Distance restraints	CNS/XPLOR_distance_constraints_2	OK	1829 (1)	noe	97.8 (chain: A, length: 92)
2	Distance restraints	CNS/XPLOR_distance_constraints_3	OK	74 (1)	hbond	54.3 (chain: A, length: 92)
1	Dihedral angle restraints	CNS/XPLOR_dihedral_4	OK	225 (225)	.	97.8 (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: 98.9%
- Total number of assignments
  - ¹³C chemical shifts: 405
  - ¹H chemical shifts: 454
  - ¹⁵N chemical shifts: 95
- Completeness of assignments
  - Entity_assemble_ID: A
- Peptide bond of PRO
- Tautomeric state of HIS
- 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_2
- Status: OK
- Experiment type: noe
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 92, Sequence coverage: 97.8%
- Total number of restraints: 1828
- Weight of restraints: 1.0 (1828)
- Potential type of restraints: square-well-parabolic (1828)
- Range of distance target values: 1.32, 2.75 (Å)
- Histogram of distance target values
- Distance restraints per residue
  - Chain_ID: A
- Distance restraints on contact map
- Saveframe: CNS/XPLOR_distance_constraints_3
  - Status: OK
  - Experiment type: hbond
  - Sequence coverage of experimental data
    - Entity_assembly_ID: A, Chain length: 92, Sequence coverage: 54.3%
  - Total number of restraints: 74
  - Weight of restraints: 1.0 (74)
  - Potential type of restraints: square-well-parabolic (74)
  - Range of distance target values: 1.0, 1.5 (Å)
  - Histogram of distance target values
  - Distance restraints per residue
    - Chain_ID: A
  - Distance restraints on contact map

Dihedral angle restraints

Saveframe: CNS/XPLOR_dihedral_4
- Status: OK
- Experiment type: .
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 92, Sequence coverage: 97.8%
- Total number of restraints: 225
- Total number of restraints per polymer type: 225
- Weight of restraints: 1.0 (225)
- Potential type of restraints: square-well-parabolic (225)
- Plot of Phi-Psi angle restraints
- Dihedral angle restraints per residue
  - Chain_ID: A

Keywords Med26, mediator, mediator complex, nmr, solution structure