BMRB Entry 16835
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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/BMR16835
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Title: The NMR structure of the autophagy-related protein Atg8 PubMed: 20428927
Deposition date: 2010-04-05 Original release date: 2010-05-11
Authors: Kumeta, Hiroyuki; Watanabe, Masahiro; Nakatogawa, Hitoshi; Yamaguchi, Masaya; Ogura, Kenji; Adachi, Wakana; Fujioka, Yuko; Noda, Nobuo; Ohsumi, Yoshinori; Inagaki, Fuyuhiko
Citation: Kumeta, Hiroyuki; Watanabe, Masahiro; Nakatogawa, Hitoshi; Yamaguchi, Masaya; Ogura, Kenji; Adachi, Wakana; Fujioka, Yuko; Noda, Nobuo; Ohsumi, Yoshinori; Inagaki, Fuyuhiko. "The NMR structure of the autophagy-related protein Atg8." J. Biomol. NMR 47, 237-241 (2010).
Assembly members:
Atg8_K26P, polymer, 116 residues, 13459.674 Da.
Natural source: Common Name: Baker Taxonomy ID: 4932 Superkingdom: not available Kingdom: not available Genus/species: Eukaryota Fungi
Experimental source: Production method: recombinant technology Host organism: Escherichia coli
Entity Sequences (FASTA):
Atg8_K26P: MKSTFKSEYPFEKRKAESER
IADRFPNRIPVICEKAEKSD
IPEIDKRKYLVPADLTVGQF
VYVIRKRIMLPPEKAIFIFV
NDTLPPTAALMSAIYQEHKD
KDGFLYVTYSGENTFG
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 521 |
| 15N chemical shifts | 113 |
| 1H chemical shifts | 863 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | Atg8 | 1 |
Entities:
Entity 1, Atg8 116 residues - 13459.674 Da.
| 1 | MET | LYS | SER | THR | PHE | LYS | SER | GLU | TYR | PRO | ||||
| 2 | PHE | GLU | LYS | ARG | LYS | ALA | GLU | SER | GLU | ARG | ||||
| 3 | ILE | ALA | ASP | ARG | PHE | PRO | ASN | ARG | ILE | PRO | ||||
| 4 | VAL | ILE | CYS | GLU | LYS | ALA | GLU | LYS | SER | ASP | ||||
| 5 | ILE | PRO | GLU | ILE | ASP | LYS | ARG | LYS | TYR | LEU | ||||
| 6 | VAL | PRO | ALA | ASP | LEU | THR | VAL | GLY | GLN | PHE | ||||
| 7 | VAL | TYR | VAL | ILE | ARG | LYS | ARG | ILE | MET | LEU | ||||
| 8 | PRO | PRO | GLU | LYS | ALA | ILE | PHE | ILE | PHE | VAL | ||||
| 9 | ASN | ASP | THR | LEU | PRO | PRO | THR | ALA | ALA | LEU | ||||
| 10 | MET | SER | ALA | ILE | TYR | GLN | GLU | HIS | LYS | ASP | ||||
| 11 | LYS | ASP | GLY | PHE | LEU | TYR | VAL | THR | TYR | SER | ||||
| 12 | GLY | GLU | ASN | THR | PHE | GLY |
Samples:
CN-label: Atg8 K26P, [U-99% 13C; U-99% 15N], 0.6 mM; H2O 90%; D2O 10%
sample_conditions_1: ionic strength: 170 mM; pH: 6.8; pressure: 1 atm; temperature: 297 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-15N HSQC | CN-label | isotropic | sample_conditions_1 |
| 2D 1H-13C HSQC | CN-label | isotropic | sample_conditions_1 |
| 3D HNCO | CN-label | isotropic | sample_conditions_1 |
| 3D HN(CO)CA | CN-label | isotropic | sample_conditions_1 |
| 3D HNCA | CN-label | isotropic | sample_conditions_1 |
| 3D HBHA(CO)NH | CN-label | isotropic | sample_conditions_1 |
| 3D HN(CA)HA | CN-label | isotropic | sample_conditions_1 |
| 3D C(CO)NH | CN-label | isotropic | sample_conditions_1 |
| 3D HCCH-TOCSY | CN-label | isotropic | sample_conditions_1 |
| 3D CCH-TOCSY | CN-label | isotropic | sample_conditions_1 |
| 2D HbCbCgCdHd | CN-label | isotropic | sample_conditions_1 |
| 2D HbCbCgCdCeHe | CN-label | isotropic | sample_conditions_1 |
| 3D 1H-15N NOESY | CN-label | isotropic | sample_conditions_1 |
| 3D 1H-13C NOESY | CN-label | isotropic | sample_conditions_1 |
Software:
VNMR v6.1C, Varian - collection
NMRPipe v5.0, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
TALOS v2007.068.09.07, Cornilescu, Delaglio and Bax - data analysis
SPARKY v3.113, Goddard - chemical shift assignment, peak picking
CYANA v2.1, Guntert, Mumenthaler and Wuthrich - structure solution
NMR spectrometers:
- Varian INOVA 800 MHz
- Varian INOVA 600 MHz
Related Database Links:
| BMRB | 16120 17879 |
| PDB | |
| DBJ | GAA21477 |
| EMBL | CAA56032 CAA84899 CAY77706 |
| GB | AAT92889 AHY74413 AJP37015 AJP81917 AJP82297 |
| REF | NP_009475 |
| SP | A6ZKM4 P38182 |
| TPG | DAA07045 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts