BMRB Entry 53993
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR53993
NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
All files associated with the entry
Citation: Njemoga, Stefana; Jenner, Leon; Volko, Viliam; Polak, Adam; Fialova, Lubica; Augustin, Tomas; Hanes, Jozef; Skrabana, Rostislav; Kozelekova, Aneta; Ilkovicova, Lucia; Crha, Radek; Kaderavek, Pavel; Kovacech, Branislav; Hritz, Jozef; Cehlar, Ondrej. "Structure and epitope mapping of the conformational anti tau antibody DC11 Fab
" .
Assembly members:
entity_1, polymer, 96 residues, Formula weight is not available
entity_2, polymer, 214 residues, Formula weight is not available
entity_3, polymer, 219 residues, Formula weight is not available
Natural source: Common Name: Human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens
Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pET-17b
Entity Sequences (FASTA):
entity_1: MIKHVPGGGSVQIVYKPVDL
SKVTSKCGSLGNIHHKPGGG
QVEVKSEKLDFKDRVQSKIG
SLDNITHVPGGGNKKIETHK
LTFRENAKAKTDHGAE
entity_2: EVQLQQSGAELVRSGASVKL
SCTASGFNIKDYYMHWVKQR
PEQGLEWIGWIDPENADTEY
APKFQGKATMTADTSSNTAY
LQLSSLTSEDTAVYYCKTGD
YWGQGTTLTVSSAKTTPPSV
YPLAPGSAAQTNSMVTLGCL
VKGYFPEPVTVTWNSGSLSS
GVHTFPAVLQSDLYTLSSSV
TVPSSTWPSETVTCNVAHPA
SSTKVDKKIVPRDC
entity_3: DVVMTQTPLTLSVTIGQPAS
ISCKSSQSLLDSDGKTYLNW
LLQRPGQSPKRLIFLVSKLD
SGVPDRFTGSGSGTDFTLKI
SRVEAEDLGVYYCWQKTHFP
QTFGGGTNLEIKRADAAPTV
SIFPPSSEQLTSGGASVVCF
LNNFYPKDINVKWKIDGSER
QNGVLNSWTDQDSKDSTYSM
SSTLTLTKDEYERHNSYTCE
ATHKTSTSPIVKSFNRNEC
| Data type | Count |
| 13C chemical shifts | 360 |
| 15N chemical shifts | 360 |
| 1H chemical shifts | 360 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | dGAE | 1 |
| 2 | DC11 FAB (Heavy Chain) | 2 |
| 3 | DC11 FAB (Light Chain) | 3 |
Entities:
Entity 1, dGAE 96 residues - Formula weight is not available
| 1 | MET | ILE | LYS | HIS | VAL | PRO | GLY | GLY | GLY | SER | ||||
| 2 | VAL | GLN | ILE | VAL | TYR | LYS | PRO | VAL | ASP | LEU | ||||
| 3 | SER | LYS | VAL | THR | SER | LYS | CYS | GLY | SER | LEU | ||||
| 4 | GLY | ASN | ILE | HIS | HIS | LYS | PRO | GLY | GLY | GLY | ||||
| 5 | GLN | VAL | GLU | VAL | LYS | SER | GLU | LYS | LEU | ASP | ||||
| 6 | PHE | LYS | ASP | ARG | VAL | GLN | SER | LYS | ILE | GLY | ||||
| 7 | SER | LEU | ASP | ASN | ILE | THR | HIS | VAL | PRO | GLY | ||||
| 8 | GLY | GLY | ASN | LYS | LYS | ILE | GLU | THR | HIS | LYS | ||||
| 9 | LEU | THR | PHE | ARG | GLU | ASN | ALA | LYS | ALA | LYS | ||||
| 10 | THR | ASP | HIS | GLY | ALA | GLU |
Entity 2, DC11 FAB (Heavy Chain) 214 residues - Formula weight is not available
| 1 | GLU | VAL | GLN | LEU | GLN | GLN | SER | GLY | ALA | GLU | ||||
| 2 | LEU | VAL | ARG | SER | GLY | ALA | SER | VAL | LYS | LEU | ||||
| 3 | SER | CYS | THR | ALA | SER | GLY | PHE | ASN | ILE | LYS | ||||
| 4 | ASP | TYR | TYR | MET | HIS | TRP | VAL | LYS | GLN | ARG | ||||
| 5 | PRO | GLU | GLN | GLY | LEU | GLU | TRP | ILE | GLY | TRP | ||||
| 6 | ILE | ASP | PRO | GLU | ASN | ALA | ASP | THR | GLU | TYR | ||||
| 7 | ALA | PRO | LYS | PHE | GLN | GLY | LYS | ALA | THR | MET | ||||
| 8 | THR | ALA | ASP | THR | SER | SER | ASN | THR | ALA | TYR | ||||
| 9 | LEU | GLN | LEU | SER | SER | LEU | THR | SER | GLU | ASP | ||||
| 10 | THR | ALA | VAL | TYR | TYR | CYS | LYS | THR | GLY | ASP | ||||
| 11 | TYR | TRP | GLY | GLN | GLY | THR | THR | LEU | THR | VAL | ||||
| 12 | SER | SER | ALA | LYS | THR | THR | PRO | PRO | SER | VAL | ||||
| 13 | TYR | PRO | LEU | ALA | PRO | GLY | SER | ALA | ALA | GLN | ||||
| 14 | THR | ASN | SER | MET | VAL | THR | LEU | GLY | CYS | LEU | ||||
| 15 | VAL | LYS | GLY | TYR | PHE | PRO | GLU | PRO | VAL | THR | ||||
| 16 | VAL | THR | TRP | ASN | SER | GLY | SER | LEU | SER | SER | ||||
| 17 | GLY | VAL | HIS | THR | PHE | PRO | ALA | VAL | LEU | GLN | ||||
| 18 | SER | ASP | LEU | TYR | THR | LEU | SER | SER | SER | VAL | ||||
| 19 | THR | VAL | PRO | SER | SER | THR | TRP | PRO | SER | GLU | ||||
| 20 | THR | VAL | THR | CYS | ASN | VAL | ALA | HIS | PRO | ALA | ||||
| 21 | SER | SER | THR | LYS | VAL | ASP | LYS | LYS | ILE | VAL | ||||
| 22 | PRO | ARG | ASP | CYS |
Entity 3, DC11 FAB (Light Chain) 219 residues - Formula weight is not available
| 1 | ASP | VAL | VAL | MET | THR | GLN | THR | PRO | LEU | THR | ||||
| 2 | LEU | SER | VAL | THR | ILE | GLY | GLN | PRO | ALA | SER | ||||
| 3 | ILE | SER | CYS | LYS | SER | SER | GLN | SER | LEU | LEU | ||||
| 4 | ASP | SER | ASP | GLY | LYS | THR | TYR | LEU | ASN | TRP | ||||
| 5 | LEU | LEU | GLN | ARG | PRO | GLY | GLN | SER | PRO | LYS | ||||
| 6 | ARG | LEU | ILE | PHE | LEU | VAL | SER | LYS | LEU | ASP | ||||
| 7 | SER | GLY | VAL | PRO | ASP | ARG | PHE | THR | GLY | SER | ||||
| 8 | GLY | SER | GLY | THR | ASP | PHE | THR | LEU | LYS | ILE | ||||
| 9 | SER | ARG | VAL | GLU | ALA | GLU | ASP | LEU | GLY | VAL | ||||
| 10 | TYR | TYR | CYS | TRP | GLN | LYS | THR | HIS | PHE | PRO | ||||
| 11 | GLN | THR | PHE | GLY | GLY | GLY | THR | ASN | LEU | GLU | ||||
| 12 | ILE | LYS | ARG | ALA | ASP | ALA | ALA | PRO | THR | VAL | ||||
| 13 | SER | ILE | PHE | PRO | PRO | SER | SER | GLU | GLN | LEU | ||||
| 14 | THR | SER | GLY | GLY | ALA | SER | VAL | VAL | CYS | PHE | ||||
| 15 | LEU | ASN | ASN | PHE | TYR | PRO | LYS | ASP | ILE | ASN | ||||
| 16 | VAL | LYS | TRP | LYS | ILE | ASP | GLY | SER | GLU | ARG | ||||
| 17 | GLN | ASN | GLY | VAL | LEU | ASN | SER | TRP | THR | ASP | ||||
| 18 | GLN | ASP | SER | LYS | ASP | SER | THR | TYR | SER | MET | ||||
| 19 | SER | SER | THR | LEU | THR | LEU | THR | LYS | ASP | GLU | ||||
| 20 | TYR | GLU | ARG | HIS | ASN | SER | TYR | THR | CYS | GLU | ||||
| 21 | ALA | THR | HIS | LYS | THR | SER | THR | SER | PRO | ILE | ||||
| 22 | VAL | LYS | SER | PHE | ASN | ARG | ASN | GLU | CYS |
Samples:
sample_1: dGAE, [U-13C; U-15N], 590 uM; D2O, [U-2H], 10%; sodium phosphate 10 mM; potassium phosphate 1.8 mM; sodium chloride 137 mM; potassium chloride 2.7 mM; protease inhibitor cocktail 1.6 tablet/100mL
sample_2: dGAE, [U-13C; U-15N], 250 uM; D2O, [U-2H], 10%; sodium phosphate 10 mM; potassium phosphate 1.8 mM; sodium chloride 137 mM; potassium chloride 2.7 mM; protease inhibitor cocktail 1.6 tablet/100mL; DC11 FAB (Heavy Chain) 250 uM; DC11 FAB (Light Chain) 250 uM
sample_3: dGAE, [U-13C; U-15N], 160 uM; D2O, [U-2H], 10%; sodium phosphate 10 mM; potassium phosphate 1.8 mM; sodium chloride 137 mM; potassium chloride 2.7 mM; protease inhibitor cocktail 1.6 tablet/100mL; DC11 FAB (Heavy Chain) 320 uM; DC11 FAB (Light Chain) 320 uM
sample_4: dGAE, [U-13C; U-15N], 80 uM; D2O, [U-2H], 10%; sodium phosphate 10 mM; potassium phosphate 1.8 mM; sodium chloride 137 mM; potassium chloride 2.7 mM; protease inhibitor cocktail 1.6 tablet/100mL; DC11 FAB (Heavy Chain) 320 uM; DC11 FAB (Light Chain) 320 uM
sample_conditions_1: ionic strength: 150 mM; pH: 7.4; pressure: 1 atm; temperature: 278 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-15N HSQC | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCO | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H-15N HSQC | sample_2 | isotropic | sample_conditions_1 |
| 3D HNCO | sample_2 | isotropic | sample_conditions_1 |
| 2D 1H-15N HSQC | sample_3 | isotropic | sample_conditions_1 |
| 3D HNCO | sample_3 | isotropic | sample_conditions_1 |
| 2D 1H-15N HSQC | sample_4 | isotropic | sample_conditions_1 |
| 3D HNCO | sample_4 | isotropic | sample_conditions_1 |
Software:
TOPSPIN v4.1 - collection
NMRFAM-SPARKY - data analysis, peak picking
NMRPipe - processing
SMILE - processing
NMR spectrometers:
- Bruker AVANCE NEO 950 MHz
Download HSQC peak lists in one of the following formats:
CSV: Backbone
or all simulated peaks
SPARKY: Backbone
or all simulated peaks