BMRB Entry 17388
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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/BMR17388
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Title: Solution Structure of the Zinc Finger Domain of USP13
Deposition date: 2010-12-28 Original release date: 2011-12-14
Authors: Zhang, Yuhang; Zhou, Chenjie; Zhou, Ziren; Song, Aixin; Hu, Hongyu
Citation: Zhang, Yuhang; Song, Aixin; Zhou, Chenjie; Zhou, Ziren; Hu, Hongyu. "Biochemical Characterization of the Ubiquitin Receptors in USP13 Reveals Different Catalytic Activation of Deubiquitination from Its Analogue USP5" Not known ., .-..
Assembly members:
entity, polymer, 114 residues, 12696.393 Da.
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
Entity Sequences (FASTA):
entity: VSKYANNLTQLDNGVRIPPS
GWKCARCDLRENLWLNLTDG
SVLCGKWFFDSSGGNGHALE
HYRDMGYPLAVKLGTITPDG
ADVYSFQEEEPVLDPHLAKH
LAHFGIDMLHMHGT
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 408 |
| 15N chemical shifts | 97 |
| 1H chemical shifts | 658 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | USP13 | 1 |
Entities:
Entity 1, USP13 114 residues - 12696.393 Da.
| 1 | VAL | SER | LYS | TYR | ALA | ASN | ASN | LEU | THR | GLN | ||||
| 2 | LEU | ASP | ASN | GLY | VAL | ARG | ILE | PRO | PRO | SER | ||||
| 3 | GLY | TRP | LYS | CYS | ALA | ARG | CYS | ASP | LEU | ARG | ||||
| 4 | GLU | ASN | LEU | TRP | LEU | ASN | LEU | THR | ASP | GLY | ||||
| 5 | SER | VAL | LEU | CYS | GLY | LYS | TRP | PHE | PHE | ASP | ||||
| 6 | SER | SER | GLY | GLY | ASN | GLY | HIS | ALA | LEU | GLU | ||||
| 7 | HIS | TYR | ARG | ASP | MET | GLY | TYR | PRO | LEU | ALA | ||||
| 8 | VAL | LYS | LEU | GLY | THR | ILE | THR | PRO | ASP | GLY | ||||
| 9 | ALA | ASP | VAL | TYR | SER | PHE | GLN | GLU | GLU | GLU | ||||
| 10 | PRO | VAL | LEU | ASP | PRO | HIS | LEU | ALA | LYS | HIS | ||||
| 11 | LEU | ALA | HIS | PHE | GLY | ILE | ASP | MET | LEU | HIS | ||||
| 12 | MET | HIS | GLY | THR |
Samples:
sample_1: USP13, [U-15N], 1 mM; sodium phosphate 20 mM; sodium chloride 50 mM; H2O 90%; D2O 10%
sample_2: entity, [U-100% 13C; U-100% 15N], 1 mM; sodium phosphate 20 mM; sodium chloride 50 mM; H2O 90%; D2O 10%
sample_conditions_1: pH: 6.5; pressure: 1 atm; temperature: 298 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-15N HSQC | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCACB | sample_2 | isotropic | sample_conditions_1 |
| 3D CBCA(CO)NH | sample_2 | isotropic | sample_conditions_1 |
| 3D HNHA | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCO | sample_2 | isotropic | sample_conditions_1 |
| 3D C(CO)NH | sample_2 | isotropic | sample_conditions_1 |
| 3D HCCH-TOCSY | sample_2 | isotropic | sample_conditions_1 |
| 3D 1H-15N NOESY | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-13C NOESY | sample_2 | isotropic | sample_conditions_1 |
Software:
ARIA, Linge, O, . - refinement, structure solution
NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
TALOS, Cornilescu, Delaglio and Bax - data analysis
SPARKY, Goddard - chemical shift assignment, peak picking
ProcheckNMR, Laskowski and MacArthur - data analysis
NMR spectrometers:
- Bruker Avance 600 MHz
Related Database Links:
| PDB | |
| DBJ | BAF83027 BAG63715 |
| EMBL | CAL38193 CAL38270 CAL38486 CAL38655 |
| GB | AAC63405 AAH16146 ABM83398 ABM86610 ADM34989 |
| REF | NP_001178195 NP_001252567 NP_003931 XP_002912504 XP_003310172 |
| SP | E1BMF7 Q92995 |
| TPG | DAA33286 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts