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BMRB: 25690

2N51

NMR structure of the C-terminal region of human eukaryotic elongation factor 1B

Authors

Wu, H., Feng, Y.

Assembly

eukaryotic elongation factor 1B monomer

Entity

1. eukaryotic elongation factor 1B monomer (polymer, Thiol state: all free), 133 monomers, 14875.49 Da Detail

GPGSEDDDID LFGSDNEEED KEAAQLREER LRQYAEKKAK KPALVAKSSI LLDVKPWDDE TDMAQLEACV RSIQLDGLVW GASKLVPVGY GIRKLQIQCV VEDDKVGTDL LEEEITKFEE HVQSVDIAAF NKI

Formula weight

14875.49 Da

Source organism

Exptl. method

Refine. method

molecular dynamics simulated annealing

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 99.2 %, Completeness: 97.0 %, Completeness (bb): 98.5 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	97.0 % (1487 of 1533)	96.4 % (771 of 800)	97.6 % (579 of 593)	97.9 % (137 of 140)
Backbone	98.5 % (778 of 790)	97.4 % (263 of 270)	99.5 % (389 of 391)	97.7 % (126 of 129)
Sidechain	96.1 % (834 of 868)	95.8 % (508 of 530)	96.3 % (315 of 327)	100.0 % (11 of 11)
Aromatic	75.7 % (56 of 74)	75.7 % (28 of 37)	74.3 % (26 of 35)	100.0 % (2 of 2)
Methyl	100.0 % (156 of 156)	100.0 % (78 of 78)	100.0 % (78 of 78)

1. entity

GPGSEDDDID LFGSDNEEED KEAAQLREER LRQYAEKKAK KPALVAKSSI LLDVKPWDDE TDMAQLEACV RSIQLDGLVW GASKLVPVGY GIRKLQIQCV VEDDKVGTDL LEEEITKFEE HVQSVDIAAF NKI

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

LACS Plot; CA

Referencing offset: -0.16 ppm, Outliers: 1 Detail

LACS Plot; CB

Referencing offset: -0.16 ppm, Outliers: 1 Detail

LACS Plot; HA

Referencing offset: -0.08 ppm, Outliers: 1 Detail

LACS Plot; CO

Referencing offset: 0.11 ppm, Outliers: 3 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 2N51, Strand ID: A Detail

Release date

2016-05-22

Citation

The C-terminal region of human eukaryotic elongation factor 1Bδ
Wu, H., Gong, W., Wang, J., Perrett, S., Feng, Y.
J. Biomol. NMR (2016), 64, 181-187, PubMed 26762120 , DOI 10.1007/s10858-016-0012-6 , Abstract

Related entities 1. eukaryotic elongation factor 1B monomer, : 1 : 3 : 55 entities Detail

Interaction partners 1. eukaryotic elongation factor 1B monomer, : 119 interactors Detail

More details for 119 interactors identified by 26 citations

Experiments performed 15 experiments Detail

1 2D 1H-15N HSQC

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

2 2D 1H-13C HSQC aliphatic

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

3 2D 1H-13C HSQC aromatic

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

4 3D HNCO

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

5 3D HN(CA)CO

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

6 3D HNCACB

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

7 3D CBCA(CO)NH

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

8 3D HBHA(CO)NH

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

9 3D HBHANH

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

10 3D HCCH-TOCSY

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

11 3D CCH-TOCSY

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

12 3D CCH-COSY

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

13 3D 1H-15N NOESY

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

14 3D 1H-13C NOESY aliphatic

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	D2O	natural abundance		10 %

15 3D 1H-13C NOESY aromatic

Instrument

Bruker DMX - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Type	Concentration
1	entity	[U-13C; U-15N]		0.8 mM
2	TRIS	natural abundance		20 mM
3	sodium chloride	natural abundance		200 mM
4	DSS	natural abundance		0.01 % w/v
5	H2O	natural abundance		90 %
6	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_25690_2n51.nef
Input source #2: Coordindates	2n51.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

-150-----160-------170-------180-------190-------200-------210-------220-------230-------240-------2
GPGSEDDDIDLFGSDNEEEDKEAAQLREERLRQYAEKKAKKPALVAKSSILLDVKPWDDETDMAQLEACVRSIQLDGLVWGASKLVPVGYGIRKLQIQCV
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
GPGSEDDDIDLFGSDNEEEDKEAAQLREERLRQYAEKKAKKPALVAKSSILLDVKPWDDETDMAQLEACVRSIQLDGLVWGASKLVPVGYGIRKLQIQCV
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100

50-------260-------270-------280-
VEDDKVGTDLLEEEITKFEEHVQSVDIAAFNKI
|||||||||||||||||||||||||||||||||
VEDDKVGTDLLEEEITKFEEHVQSVDIAAFNKI
-------110-------120-------130---

Chain assignments

Entity_assembly_ID (NMR)	Auth_asym_ID (model)	Length	Unmapped	Conflict	Sequence coverage (%)
A	A	133	0	0	100.0

Content subtype: combined_25690_2n51.nef

#	Content subtype	Saveframe	Status	# of rows (sets)	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chem_shift_list_1	Warning	1489		99.2 (chain: A, length: 133)
1	Distance restraints	CNS/XPLOR_distance_constraints_2	OK	5130 (1)	noe	99.2 (chain: A, length: 133)
2	Distance restraints	CNS/XPLOR_distance_constraints_3	OK	106 (1)	hbond	51.1 (chain: A, length: 133)
1	Dihedral angle restraints	CNS/XPLOR_dihedral_4	OK	249 (249)	.	85.7 (chain: A, length: 133)

Assigned chemical shifts

Saveframe: assigned_chem_shift_list_1
- Status: Warning
- Sequence coverage of experimental data
  - Entity_assembly_ID: A, Chain length: 133, Sequence coverage: 99.2%
- Total number of assignments
  - ¹H chemical shifts: 773
  - ¹³C chemical shifts: 579
  - ¹⁵N chemical shifts: 137
- Completeness of assignments
  - Entity_assemble_ID: A
- Redox state of CYS
- 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: 133, Sequence coverage: 99.2%
- Total number of restraints: 5129
- Weight of restraints: 1.0 (5129)
- Potential type of restraints: square-well-parabolic (5129)
- Range of distance target values: 2.3, 4.9 (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
- Saveframe: CNS/XPLOR_distance_constraints_3
  - Status: OK
  - Experiment type: hbond
  - Sequence coverage of experimental data
    - Entity_assembly_ID: A, Chain length: 133, Sequence coverage: 51.1%
  - Total number of restraints: 106
  - Weight of restraints: 1.0 (106)
  - Potential type of restraints: square-well-parabolic (106)
  - Range of distance target values: 2.0, 3.0 (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: 133, Sequence coverage: 85.7%
- Total number of restraints: 249
- Total number of restraints per polymer type: 249
- Weight of restraints: 1.0 (249)
- Potential type of restraints: square-well-parabolic (249)
- Plot of Phi-Psi angle restraints
- Dihedral angle restraints per residue
  - Chain_ID: A

Keywords GUANINE NUCLEOTIDE EXCHANGE FACTOR