BMRB Entry 25649
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, SPARTA
BMRB Entry DOI: doi:10.13018/BMR25649
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Title: Human Brd4 ET domain in complex with MLV Integrase C-term PubMed: 26858406
Deposition date: 2015-06-03 Original release date: 2016-02-29
Authors: Crowe, Brandon; Foster, Mark
Citation: Crowe, Brandon; Larue, Ross; Yuan, Chunhua; Kvaratskhelia, Mamuka; Foster, Mark. "Structure of the Brd4 ET domain bound to a C-terminal motif from gamma-retroviral integrases reveals a conserved mechanism of interaction" Proc. Natl. Acad. Sci. U. S. A. 113, 2086-2091 (2016).
Assembly members:
Brd4_ET, polymer, 86 residues, 9291.632 Da.
MLV_IN_EBM, polymer, 17 residues, 2157.567 Da.
Natural source: Common Name: Human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens
Experimental source: Production method: recombinant technology Host organism: Escherichia coli
Entity Sequences (FASTA):
Brd4_ET: GAIAMESEEEDKCKPMSYEE
KRQLSLDINKLPGEKLGRVV
HIIQSREPSLKNSNPDEIEI
DFETLKPSTLRELERYVTSC
LRKKTR
MLV_IN_EBM: TWRVQRSQNPLKIRLTR
- assigned_chemical_shifts
Data type | Count |
13C chemical shifts | 354 |
15N chemical shifts | 86 |
1H chemical shifts | 551 |
Additional metadata:
Assembly:
Entity Assembly ID | Entity Name | Entity ID |
---|---|---|
1 | entity_1 | 1 |
2 | entity_2 | 2 |
Entities:
Entity 1, entity_1 86 residues - 9291.632 Da.
Residues 1-5 (GAIAM) are non-native cloning artifacts. Residues 6-84 are human Brd4 ET domain (600-678) Residues 85-86 (TR) are non native cloning artifacts.
1 | GLY | ALA | ILE | ALA | MET | GLU | SER | GLU | GLU | GLU | ||||
2 | ASP | LYS | CYS | LYS | PRO | MET | SER | TYR | GLU | GLU | ||||
3 | LYS | ARG | GLN | LEU | SER | LEU | ASP | ILE | ASN | LYS | ||||
4 | LEU | PRO | GLY | GLU | LYS | LEU | GLY | ARG | VAL | VAL | ||||
5 | HIS | ILE | ILE | GLN | SER | ARG | GLU | PRO | SER | LEU | ||||
6 | LYS | ASN | SER | ASN | PRO | ASP | GLU | ILE | GLU | ILE | ||||
7 | ASP | PHE | GLU | THR | LEU | LYS | PRO | SER | THR | LEU | ||||
8 | ARG | GLU | LEU | GLU | ARG | TYR | VAL | THR | SER | CYS | ||||
9 | LEU | ARG | LYS | LYS | THR | ARG |
Entity 2, entity_2 17 residues - 2157.567 Da.
residues 1-17 are MLV Integrase C-term EBM(389-405)
1 | THR | TRP | ARG | VAL | GLN | ARG | SER | GLN | ASN | PRO | ||||
2 | LEU | LYS | ILE | ARG | LEU | THR | ARG |
Samples:
U13C-15NBrd4_MLV_in_H2O: Brd4 ET, [U-99% 13C; U-99% 15N], 0.4 0.8 mM; MLV IN EBM0.4 0.8 mM; TRIS, [U-2H], 20 mM; sodium chloride 100 mM; sodium azide 0.002 % v/v; DSS 0.5 mM; DTT, [U-2H], 2 mM; H2O 90%; D2O 10%
U13C-15NBrd4_MLV_in_D2O: Brd4 ET, [U-99% 13C; U-99% 15N], 0.4 0.8 mM; MLV IN EBM0.4 0.8 mM; TRIS, [U-2H], 20 mM; sodium chloride 100 mM; sodium azide 0.002 % v/v; DSS 0.5 mM; DTT, [U-2H], 2 mM; D2O 100%
U15NBrd4_MLV_in_H2O: Brd4 ET, [U-99% 15N], 0.4 0.8 mM; MLV IN EBM0.4 0.8 mM; TRIS, [U-2H], 20 mM; sodium chloride 100 mM; sodium azide 0.002 % v/v; DSS 0.5 mM; DTT, [U-2H], 2 mM; H2O 90%; D2O 10%
U15NBrd4_free: Brd4 ET, [U-99% 15N], 0.4 0.8 mM; TRIS, [U-2H], 20 mM; sodium chloride 100 mM; sodium azide 0.002 % v/v; DSS 0.5 mM; DTT, [U-2H], 2 mM; H2O 90%; D2O 10%
MLV_IN_EBM_in_H2O: MLV IN EBM 1 mM; DSS 0.5 mM; sodium azide 0.002 % v/v; H2O 90%; D2O 10%
sample_conditions_1: ionic strength: 0.25 M; pH: 7.0; pressure: 1 atm; temperature: 298 K
Experiments:
Name | Sample | Sample state | Sample conditions |
---|---|---|---|
2D 1H-15N HSQC | U15NBrd4_free | isotropic | sample_conditions_1 |
2D 1H-15N HSQC | U15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
2D 1H-15N HSQC | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
2D 1H-13C HSQC aliphatic | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
2D 1H-13C HSQC aliphatic | U13C-15NBrd4_MLV_in_D2O | isotropic | sample_conditions_1 |
1D 13C,15N-filtered watergate 1H | MLV_IN_EBM_in_H2O | isotropic | sample_conditions_1 |
1D 13C,15N-filtered watergate 1H | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
3D HNCO | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
3D HNCA | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
3D HNCACB | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
3D CBCA(CO)NH | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
3D HBHA(CO)NH | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
3D HCCH-TOCSY | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
3D CC(CO)NH-TOCSY | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
2D 13C,15N-filtered 1H-1H COSY | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
2D 13C,15N-filtered 1H-1H TOCSY | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
2D 13C,15N-filtered 1H-1H NOESY | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
2D 13C,15N-filtered 1H-1H COSY | U13C-15NBrd4_MLV_in_D2O | isotropic | sample_conditions_1 |
2D 13C,15N-filtered 1H-1H TOCSY | U13C-15NBrd4_MLV_in_D2O | isotropic | sample_conditions_1 |
2D 13C,15N-filtered 1H-1H NOESY | U13C-15NBrd4_MLV_in_D2O | isotropic | sample_conditions_1 |
3D 1H-15N NOESY | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
3D 1H-13C NOESY aliphatic | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
3D 1H-13C NOESY aliphatic | U13C-15NBrd4_MLV_in_D2O | isotropic | sample_conditions_1 |
3D 13C,15N-filtered(f1) 1H-15N(f2) NOESY | U13C-15NBrd4_MLV_in_H2O | isotropic | sample_conditions_1 |
3D 13C,15N-filtered(f1) 1H-13C(f2) NOESY aliphatic | U13C-15NBrd4_MLV_in_D2O | isotropic | sample_conditions_1 |
Software:
xwinnmr, Bruker Biospin - collection
TOPSPIN, Bruker Biospin - collection
NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
NMRViewJ v8.1.17, Johnson, One Moon Scientific - chemical shift assignment, data analysis, peak picking
PINE, Bahrami, Markley, Assadi, and Eghbalnia - chemical shift assignment
TALOS-N, Cornilescu, Delaglio and Bax - data analysis
CYANA v3.97, Guntert, Mumenthaler and Wuthrich - refinement, structure solution
PSVS, Bhattacharya and Montelione - data analysis
NMR spectrometers:
- Bruker Avance III HD Ultrashield 600 MHz
- Bruker Avance III HD Ascend 700 MHz
- Bruker Avance III HD 800 MHz
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts