BMRB Entry 51506
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR51506
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Title: Solid-state NMR 1H-13C-15N assignment of African cichlid nackednavirus capsid protein PubMed: 36949039
Deposition date: 2022-06-29 Original release date: 2023-06-30
Authors: Pfister, Sara; Meier, Beat; Wiegand, Thomas; Bockmann, Anja; Malar, Alexander
Citation: Pfister, Sara; Rabl, Julius; Wiegand, Thomas; Mattei, Simone; Malar, Alexander; Lecoq, Lauriane; Seitz, Stefan; Bartenschlager, Ralf; Bockmann, Anja; Nassal, Michael; Boehringer, Daniel; Meier, Beat. "Structural conservation of HBV-like capsid proteins over hundreds of millions of years despite the shift from non-enveloped to enveloped life-style" Nat. Commun. 14, 1574-1574 (2023).
Assembly members:
entity_1, polymer, 175 residues, 3567274 Da.
Natural source: Common Name: bony fishes Taxonomy ID: 27755 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Ophthalmotilapia ventralis
Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pRSF_T7-CNDVcOpt
Entity Sequences (FASTA):
entity_1: MGTFIELVKNMKGYKELLLP
MEMVPLPAVVLKHVKLILTS
QKEHQPWMTEMALKADQCLI
HKATLDLAGKATSNEAKPLI
EAMQQIILAMTRELWGQIQR
HHYGIVQVEHYVKQITLWQD
TPQAFRGDQPKPPSFRSDGP
TRGQGSFRPFFRGRGRGRGR
GRGSQSPARKGPLPK
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 443 |
| 15N chemical shifts | 108 |
| 1H chemical shifts | 172 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | African cichlid nackednavirus capsid | 1 |
Entities:
Entity 1, African cichlid nackednavirus capsid 175 residues - 3567274 Da.
| 1 | MET | GLY | THR | PHE | ILE | GLU | LEU | VAL | LYS | ASN | ||||
| 2 | MET | LYS | GLY | TYR | LYS | GLU | LEU | LEU | LEU | PRO | ||||
| 3 | MET | GLU | MET | VAL | PRO | LEU | PRO | ALA | VAL | VAL | ||||
| 4 | LEU | LYS | HIS | VAL | LYS | LEU | ILE | LEU | THR | SER | ||||
| 5 | GLN | LYS | GLU | HIS | GLN | PRO | TRP | MET | THR | GLU | ||||
| 6 | MET | ALA | LEU | LYS | ALA | ASP | GLN | CYS | LEU | ILE | ||||
| 7 | HIS | LYS | ALA | THR | LEU | ASP | LEU | ALA | GLY | LYS | ||||
| 8 | ALA | THR | SER | ASN | GLU | ALA | LYS | PRO | LEU | ILE | ||||
| 9 | GLU | ALA | MET | GLN | GLN | ILE | ILE | LEU | ALA | MET | ||||
| 10 | THR | ARG | GLU | LEU | TRP | GLY | GLN | ILE | GLN | ARG | ||||
| 11 | HIS | HIS | TYR | GLY | ILE | VAL | GLN | VAL | GLU | HIS | ||||
| 12 | TYR | VAL | LYS | GLN | ILE | THR | LEU | TRP | GLN | ASP | ||||
| 13 | THR | PRO | GLN | ALA | PHE | ARG | GLY | ASP | GLN | PRO | ||||
| 14 | LYS | PRO | PRO | SER | PHE | ARG | SER | ASP | GLY | PRO | ||||
| 15 | THR | ARG | GLY | GLN | GLY | SER | PHE | ARG | PRO | PHE | ||||
| 16 | PHE | ARG | GLY | ARG | GLY | ARG | GLY | ARG | GLY | ARG | ||||
| 17 | GLY | ARG | GLY | SER | GLN | SER | PRO | ALA | ARG | LYS | ||||
| 18 | GLY | PRO | LEU | PRO | LYS |
Samples:
sample_1: African cichlid nackednavirus capsid protein, [U-100% 13C; U-100% 15N], n.d. mg/L; HEPES 50 mM; DTT 5 mM; DSS n.d. uM; sodium azide n.d. uM
sample_2: African cichlid nackednavirus capsid protein, [U-100% 13C; U-100% 15N], n.d. mg/L; DTT 5 mM; DSS n.d. uM; sodium azide n.d. uM; TRIS 50 mM; EDTA 5 mM; sodium chloride 50 mM
sample_3: African cichlid nackednavirus capsid protein, [U-100% 13C; U-100% 15N], n.d. mg/L; DTT 5 mM; DSS n.d. uM; sodium azide n.d. uM; TRIS 50 mM; EDTA 5 mM; sodium chloride 50 mM
sample_conditions_1: pH: 7.5; temperature: 277.15 K
sample_conditions_2: pH: 7.5; temperature: 294 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 13C-13C DARR | sample_1 | isotropic | sample_conditions_1 |
| NCA | sample_3 | isotropic | sample_conditions_1 |
| NCO | sample_3 | isotropic | sample_conditions_1 |
| NCACB | sample_1 | isotropic | sample_conditions_1 |
| NCACX | sample_1 | isotropic | sample_conditions_1 |
| NCOCX | sample_1 | isotropic | sample_conditions_1 |
| CANCO | sample_1 | isotropic | sample_conditions_1 |
| CCC | sample_3 | isotropic | sample_conditions_1 |
| CANcoCA | sample_3 | isotropic | sample_conditions_1 |
| NcoCACB | sample_3 | isotropic | sample_conditions_1 |
| hNH | sample_2 | isotropic | sample_conditions_2 |
| hCH | sample_2 | isotropic | sample_conditions_2 |
| hCANH | sample_2 | isotropic | sample_conditions_2 |
| hNCAH | sample_2 | isotropic | sample_conditions_2 |
| hCAcoNH | sample_2 | isotropic | sample_conditions_2 |
| hNcoCAH | sample_2 | isotropic | sample_conditions_2 |
Software:
TOPSPIN v3.5 - collection, processing
CcpNMR v2 - chemical shift assignment, data analysis, peak picking
NMR spectrometers:
- Bruker Avance 850 MHz
Download HSQC peak lists in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts