BMRB Entry 15740
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR15740
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Title: Structure ensemble Backbone and side-chain 1H, 13C, and 15N Chemical Shift Assignments, 1H-15N RDCs and 1H-1H nOe restraints for protein K7 from the Vaccinia virus PubMed: 18845156
Deposition date: 2008-04-22 Original release date: 2008-11-11
Authors: Kalverda, Arnout; Thompson, Gary; Vogel, Andre; Schr der, Martina; Bowie, Andrew; Khan, Amir; Homans, Steve
Citation: Kalverda, Arnout; Thompson, Gary; Vogel, Andre; Schroeder, Martina; Bowie, Andrew; Khan, Amir; Homans, Steve. "Poxvirus K7 protein adopts a Bcl-2 fold: Biochemical mapping of its interactions with human DEAD box RNA helicase DDX3" J. Mol. Biol. 385, 843-853 (2009).
Assembly members:
K7, polymer, 145 residues, 17489.023 Da.
Natural source: Common Name: Vaccinia Virus Taxonomy ID: 10245 Superkingdom: Viruses Kingdom: not available Genus/species: Vaccinia Virus
Experimental source: Production method: recombinant technology Host organism: Escherichia coli
Entity Sequences (FASTA):
K7: GAMEDAVFYFVDDDKICSRD
SIIDLIDEYITWRNHVIVFN
KDITSCGRLYKELMKFDDVA
IRYYGIDKINEIVEAMSEGD
HYINFTKVHDQESLFATIGI
CAKITEHWGYKKISESRFQS
LGNITDLMTDDNINILILFL
EKKLN
- assigned_chemical_shifts
- RDCs
| Data type | Count |
| 13C chemical shifts | 612 |
| 15N chemical shifts | 145 |
| 1H chemical shifts | 941 |
| residual dipolar couplings | 70 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | K7 | 1 |
Entities:
Entity 1, K7 145 residues - 17489.023 Da.
The sequence matches the natural polymer from residue 4 onwards which is equivalent to residue 8 in the natural sequence The GAM n-terminal tag is an expression artifact
| 1 | GLY | ALA | MET | GLU | ASP | ALA | VAL | PHE | TYR | PHE | ||||
| 2 | VAL | ASP | ASP | ASP | LYS | ILE | CYS | SER | ARG | ASP | ||||
| 3 | SER | ILE | ILE | ASP | LEU | ILE | ASP | GLU | TYR | ILE | ||||
| 4 | THR | TRP | ARG | ASN | HIS | VAL | ILE | VAL | PHE | ASN | ||||
| 5 | LYS | ASP | ILE | THR | SER | CYS | GLY | ARG | LEU | TYR | ||||
| 6 | LYS | GLU | LEU | MET | LYS | PHE | ASP | ASP | VAL | ALA | ||||
| 7 | ILE | ARG | TYR | TYR | GLY | ILE | ASP | LYS | ILE | ASN | ||||
| 8 | GLU | ILE | VAL | GLU | ALA | MET | SER | GLU | GLY | ASP | ||||
| 9 | HIS | TYR | ILE | ASN | PHE | THR | LYS | VAL | HIS | ASP | ||||
| 10 | GLN | GLU | SER | LEU | PHE | ALA | THR | ILE | GLY | ILE | ||||
| 11 | CYS | ALA | LYS | ILE | THR | GLU | HIS | TRP | GLY | TYR | ||||
| 12 | LYS | LYS | ILE | SER | GLU | SER | ARG | PHE | GLN | SER | ||||
| 13 | LEU | GLY | ASN | ILE | THR | ASP | LEU | MET | THR | ASP | ||||
| 14 | ASP | ASN | ILE | ASN | ILE | LEU | ILE | LEU | PHE | LEU | ||||
| 15 | GLU | LYS | LYS | LEU | ASN |
Samples:
K7D8_UCN: K7D8, [U-13C; U-15N], 0.8 mM; sodium phosphate 10 mM; sodium chloride 100 mM; DTT 10 mM; DSS 0.1 mM; D2O 10%; H2O 90%
K7D8_UN: K7D8, [U-15N], 0.8 mM; sodium phosphate 10 mM; sodium chloride 100 mM; DTT 10 mM; DSS 0.1 mM; D2O 10%; H2O 90%
K7D8_UN_PF1: K7D8, [U-15N], 0.8 mM; sodium phosphate 10 mM; sodium chloride 100 mM; DTT 10 mM; DSS 0.1 mM; Pf1 phage 12 mg/ml; D2O 10%; H2O 90%
K7R_CONDITIONS_1: ionic strength: 122.5 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-15N HSQC | K7D8_UN | isotropic | K7R_CONDITIONS_1 |
| 2D 1H-13C HSQC | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 3D HNCA | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 3D HN(CO)CA | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 3D CBCA(CO)NH | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 3D HNCO | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 3D HNHA | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 3D 1H-15N NOESY | K7D8_UN | isotropic | K7R_CONDITIONS_1 |
| 3D CBCA(CO)NH | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 2D 1H-13C constant time aromatic selected HSQC | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 3D H(C)CH-TOCSY | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 3D (H)CCH-TOCSY | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 2D HB(CBCGCD)HD | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 2D HB(CBCGCDCE)HE | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 3D 1H-13C NOESY | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
| 2D j modulated 1H-15N HSQC | K7D8_UN | isotropic | K7R_CONDITIONS_1 |
| 2D 1H-(13C)-1H aromatic optimised 13C filtered (HSQC) NOESY | K7D8_UCN | isotropic | K7R_CONDITIONS_1 |
Software:
VNMR v6.1c, Varian - nmr data collection
NMRPipe v2.5 Rev 2006.184.15.37, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - determination of RDC Da & Dr parameters, processing
ccpn_analysis v1.0.9-1.0.15, CCPN - chemical shift assignment, peak picking
X-PLOR NIH v2.17, Schwieters, Kuszewski, Tjandra and Clore - structure solution
ARIA v2.17, Linge, O, nilges@pasteur.fr - refinement
NMRView v5.22, Johnson, One Moon Scientific - rdc data analysis
NMR spectrometers:
- Varian INOVA 750 MHz
- Varian INOVA 600 MHz
- Varian INOVA 500 MHz
Related Database Links:
| PDB | |
| DBJ | BAA00293 |
| EMBL | CAA48965 CAA64114 CAB54624 CAM58208 CRL86498 |
| GB | AAA48013 AAA60772 AAB96484 AAF33890 AAO89318 |
| PRF | 2015436AB |
| REF | NP_042068 YP_232921 |
| SP | P68466 P68467 Q76ZX2 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts