BMRB Entry 11549
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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/BMR11549
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Title: DnaT C-terminal domain
Deposition date: 2014-01-28 Original release date: 2014-10-06
Authors: Abe, Yoshito; Tani, Junya; Fujiyama, Saki; Urabe, Masashi; Sato, Kenji; Aramaki, Takahiko; Katayama, Tsutomu; Ueda, Tadashi
Citation: Fujiyama, Saki; Abe, Yoshito; Tani, Junya; Urabe, Masashi; Sato, Kenji; Aramaki, Takahiko; Katayama, Tsutomu; Ueda, Tadashi. "Structure and a novel mechanism of the primosome protein DnaT: formation of DnaT-ssDNA complex and dissociation of ssDNA from PriB-ssDNA complex." J. Biol. Chem. ., .-..
Assembly members:
DnaT, polymer, 98 residues, 10408.844 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):
DnaT: MFAMYPDWQPDADFIRLAAL
WGVALREPVTTEELASFIAY
WQAEGKVFHHVQWQQKLARS
LQIGRASNGGLPKRDVNTVS
EPDSQIPPGFRGHHHHHH
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 397 |
| 15N chemical shifts | 93 |
| 1H chemical shifts | 633 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | DnaT | 1 |
Entities:
Entity 1, DnaT 98 residues - 10408.844 Da.
First methionine is a initial codon for expression in Escherichia coli. Last 6 residues is affinity tag. This is the C-terminal domain of replication restart factor, DnaT
| 1 | MET | PHE | ALA | MET | TYR | PRO | ASP | TRP | GLN | PRO | ||||
| 2 | ASP | ALA | ASP | PHE | ILE | ARG | LEU | ALA | ALA | LEU | ||||
| 3 | TRP | GLY | VAL | ALA | LEU | ARG | GLU | PRO | VAL | THR | ||||
| 4 | THR | GLU | GLU | LEU | ALA | SER | PHE | ILE | ALA | TYR | ||||
| 5 | TRP | GLN | ALA | GLU | GLY | LYS | VAL | PHE | HIS | HIS | ||||
| 6 | VAL | GLN | TRP | GLN | GLN | LYS | LEU | ALA | ARG | SER | ||||
| 7 | LEU | GLN | ILE | GLY | ARG | ALA | SER | ASN | GLY | GLY | ||||
| 8 | LEU | PRO | LYS | ARG | ASP | VAL | ASN | THR | VAL | SER | ||||
| 9 | GLU | PRO | ASP | SER | GLN | ILE | PRO | PRO | GLY | PHE | ||||
| 10 | ARG | GLY | HIS | HIS | HIS | HIS | HIS | HIS |
Samples:
sample_1: DnaT, [U-99% 13C; U-99% 15N], 0.5 mM; HEPES 20 mM; H2O 90%; D2O 10%
sample_2: DnaT, [U-99% 15N], 0.1 mM; HEPES 20 mM; H2O 90%; D2O 10%
sample_conditions_1: ionic strength: 0 M; pH: 7.0; pressure: 1 atm; temperature: 298 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-15N HSQC | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-13C HSQC aliphatic | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-13C HSQC aromatic | sample_1 | isotropic | sample_conditions_1 |
| 3D CBCA(CO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D C(CO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCO | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCA | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCACB | sample_1 | isotropic | sample_conditions_1 |
| 3D HN(CO)CA | sample_1 | isotropic | sample_conditions_1 |
| 3D H(CCO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D HCCH-TOCSY | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-13C NOESY aliphatic | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-13C NOESY aromatic | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-15N NOESY | sample_1 | isotropic | sample_conditions_1 |
| 3D HCCH-COSY | sample_1 | isotropic | sample_conditions_1 |
Software:
CNS, Brunger A. T. et.al. - refinement
CYANA v2.1, Guntert, Mumenthaler and Wuthrich - structure solution
TALOS, Cornilescu, Delaglio and Bax - prediction of torsion angle
NMRDraw, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - chemical shift assignment
olivia, olivia developer team - chemical shift assignment
NMR spectrometers:
- Varian Unity 600 MHz
Related Database Links:
| PDB | |
| DBJ | BAB38745 BAE78352 BAG80162 BAI28689 BAI33823 |
| EMBL | CAP78850 CAQ34722 CAR01325 CAR06127 CAR16096 |
| GB | AAA23699 AAA97261 AAC77318 AAG59545 AAN45808 |
| REF | NP_313349 NP_418782 NP_710101 WP_000098809 WP_000098810 |
| SP | A1AJN5 A7ZVQ2 A8A891 B1IS56 B1LEG6 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts