BMRB Entry 16065
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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/BMR16065
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Title: Structure of E. coli toxin RelE(R81A/R83A)mutant in complex with antitoxin RelBc (K47-L79) peptide PubMed: 19297318
Deposition date: 2008-12-17 Original release date: 2009-04-22
Authors: Li, Guang-Yao; Zhang, Yonglong; Inouye, Masayori; Ikura, Mitsuhiko
Citation: Li, Guang-Yao; Zhang, Yonglong; Inouye, Masayori; Ikura, Mitsuhiko. "Inhibitory mechanism of E. coli RelE/RelB toxin/antitoxin module involves a helix displacement near a mRNA interferase active site" J. Biol. Chem. 284, 14628-14636 (2009).
Assembly members:
RelE, polymer, 98 residues, 11336.2 Da.
RelBc, polymer, 36 residues, 4128.7 Da.
Natural source: Common Name: E. coli Taxonomy ID: 562 Superkingdom: Eubacteria Kingdom: not available Genus/species: Escherichia coli
Experimental source: Production method: recombinant technology Host organism: Escherichia coli
Entity Sequences (FASTA):
RelE: GSHMAYFLDFDERALKEWRK
LGSTVREQLKKKLVEVLESP
RIEANKLRGMPDCYKIKLRS
SGYRLVYQVIDEKVVVFVIS
VGKAEASEVYSEAVKRIL
RelBc: GSHKQTLLSDEDAELVEIVK
ERLRNPKPVRVTLDEL
- assigned_chemical_shifts
Data type | Count |
13C chemical shifts | 496 |
15N chemical shifts | 127 |
1H chemical shifts | 993 |
Additional metadata:
Assembly:
Entity Assembly ID | Entity Name | Entity ID |
---|---|---|
1 | subunit A | 1 |
2 | subunit B | 2 |
Entities:
Entity 1, subunit A 98 residues - 11336.2 Da.
Residues 1-3 represent a non-native cloning artifact from the affinity tag.
1 | GLY | SER | HIS | MET | ALA | TYR | PHE | LEU | ASP | PHE | ||||
2 | ASP | GLU | ARG | ALA | LEU | LYS | GLU | TRP | ARG | LYS | ||||
3 | LEU | GLY | SER | THR | VAL | ARG | GLU | GLN | LEU | LYS | ||||
4 | LYS | LYS | LEU | VAL | GLU | VAL | LEU | GLU | SER | PRO | ||||
5 | ARG | ILE | GLU | ALA | ASN | LYS | LEU | ARG | GLY | MET | ||||
6 | PRO | ASP | CYS | TYR | LYS | ILE | LYS | LEU | ARG | SER | ||||
7 | SER | GLY | TYR | ARG | LEU | VAL | TYR | GLN | VAL | ILE | ||||
8 | ASP | GLU | LYS | VAL | VAL | VAL | PHE | VAL | ILE | SER | ||||
9 | VAL | GLY | LYS | ALA | GLU | ALA | SER | GLU | VAL | TYR | ||||
10 | SER | GLU | ALA | VAL | LYS | ARG | ILE | LEU |
Entity 2, subunit B 36 residues - 4128.7 Da.
Residues 1-3 represent a cloning artifact from the affinity tag.
1 | GLY | SER | HIS | LYS | GLN | THR | LEU | LEU | SER | ASP | ||||
2 | GLU | ASP | ALA | GLU | LEU | VAL | GLU | ILE | VAL | LYS | ||||
3 | GLU | ARG | LEU | ARG | ASN | PRO | LYS | PRO | VAL | ARG | ||||
4 | VAL | THR | LEU | ASP | GLU | LEU |
Samples:
sample_1: RelE, [U-13C; U-15N], 0.5 ± 0.2 mM; RelBc 0.5 ± 0.2 mM; sodium phosphate 25 ± 0 mM; sodium chloride 500 ± 0 mM; DTT 1 ± 0 mM; sodium azide 0.5 ± 0 mM
sample_2: RelE 0.5 ± 0.1 mM; RelBc, [U-13C; U-15N], 0.5 ± 0.1 mM; sodium phosphate 25 ± 2.5 mM; sodium chloride 500 ± 50 mM; DTT 1 ± 0.1 mM; sodium azide 0.5 ± 0.1 mM
sample_3: RelE, [U-13C; U-15N], 0.5 ± 0.1 mM; RelBc 0.5 ± 0.1 mM; sodium phosphate 25 ± 2.5 mM; sodium chloride 500 ± 50 mM; DTT 1 ± 0.1 mM; sodium azide 0.5 ± 0.1 mM
sample_4: RelE 0.5 ± 0.1 mM; RelBc, [U-13C; U-15N], 0.5 ± 0.1 mM; sodium phosphate 25 ± 2.5 mM; sodium chloride 500 ± 50 mM; DTT 1 ± 0.1 mM; sodium azide 0.5 ± 0.1 mM
sample_conditions_1: ionic strength: 0.5 M; pH: 6.5; pressure: 1 atm; temperature: 296.5 K
Experiments:
Name | Sample | Sample state | Sample conditions |
---|---|---|---|
2D 1H-15N HSQC | sample_1 | isotropic | sample_conditions_1 |
2D 1H-15N HSQC | sample_1 | isotropic | sample_conditions_1 |
3D HNCACB | sample_1 | isotropic | sample_conditions_1 |
3D C(CO)NH | sample_1 | isotropic | sample_conditions_1 |
3D H(CCO)NH | sample_1 | isotropic | sample_conditions_1 |
3D HNCO | sample_1 | isotropic | sample_conditions_1 |
3D 1H-15N NOESY | sample_1 | isotropic | sample_conditions_1 |
2D 1H-13C HSQC | sample_3 | isotropic | sample_conditions_1 |
3D HCCH-COSY | sample_3 | isotropic | sample_conditions_1 |
3D HCCH-TOCSY | sample_3 | isotropic | sample_conditions_1 |
3D 1H-13C NOESY | sample_3 | isotropic | sample_conditions_1 |
2D 1H-15N HSQC | sample_2 | isotropic | sample_conditions_1 |
2D 1H-15N HSQC | sample_2 | isotropic | sample_conditions_1 |
3D HNCACB | sample_2 | isotropic | sample_conditions_1 |
3D C(CO)NH | sample_2 | isotropic | sample_conditions_1 |
3D H(CCO)NH | sample_2 | isotropic | sample_conditions_1 |
3D HNCO | sample_2 | isotropic | sample_conditions_1 |
3D 1H-15N NOESY | sample_2 | isotropic | sample_conditions_1 |
2D 1H-13C HSQC | sample_4 | isotropic | sample_conditions_1 |
3D HCCH-COSY | sample_4 | isotropic | sample_conditions_1 |
3D HCCH-TOCSY | sample_4 | isotropic | sample_conditions_1 |
3D 1H-13C NOESY | sample_4 | isotropic | sample_conditions_1 |
3D X-filtered 1H-13C NOESY | sample_3 | isotropic | sample_conditions_1 |
3D X-filtered 1H-13C NOESY | sample_4 | isotropic | sample_conditions_1 |
Software:
TOPSPIN v2.0, Bruker Biospin - collection
NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - data analysis, processing
XEASY, Bartels et al. - chemical shift assignment, data analysis, peak picking
CYANA v2.1, Guntert, Mumenthaler and Wuthrich - automated NOE peak assignments, structure calculation
CNS v1.1, Brunger, Adams, Clore, Gros, Nilges and Read - refinement, structure solution
Molmol, Koradi, Billeter and Wuthrich - Structure analysis
ProcheckNMR, Laskowski and MacArthur - data analysis
VNMR, Varian - collection
NMR spectrometers:
- Bruker Avance 800 MHz
- Bruker Avance 600 MHz
- Varian INOVA 500 MHz
Related Database Links:
BMRB | 16066 16067 |
PDB | |
DBJ | BAA15262 BAI25452 BAJ43363 BAA15263 BAI25453 BAJ43364 |
EMBL | CAA26251 CBG34537 CCF87938 CDJ71963 CDP71409 CAA26250 CAQ98463 CBG34538 CBK86917 CCF87937 |
GB | AAC74636 AAN43137 AAP17028 AAS76442 ABQ02944 AAC74637 AAN43138 AAP17029 ABF03723 ABP62831 |
REF | NP_416081 NP_707430 WP_000323024 WP_000323025 WP_001513653 NP_416082 NP_707431 NP_837222 WP_000534858 WP_001413280 |
SP | P0C077 P0C078 P0C079 P0C080 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts