BMRB Entry 17059
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR17059
NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry
Citation: Hong, Yoon-Hun; Ahn, Hee-Chul; Lim, Jongsoo; Kim, Hong-Man; Ji, Hye-Young; Lee, Seunga; Kim, Ji-Hun; Park, Eun; Song, Hyun; Lee, Bong-Jin. "Identification of a novel ubiquitin binding site of STAM1 VHS domain by NMR spectroscopy" FEBS Lett. 583, 287-292 (2009).
Assembly members:
STAM1, polymer, 178 residues, Formula weight is not available
ubiquitin, polymer, 156 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-glutathionse S-transferase
Entity Sequences (FASTA):
STAM1: PLFATNPFDQDVEKATSEMN
TAEDWGLILDICDKVGQSRT
GPKDCLRSIMRRVNHKDPHV
AMQALTLLGACVSNCGKIFH
LEVCSRDFASEVSNVLNKGH
PKVCEKLKALMVEWTDEFKN
DPQLSLISAMIKNLKEQGVT
FPAIGSQAAEQAKASPALVA
KDPGTVANKKEEEDLAKA
ubiquitin: MQIFVKTLTGKTITLEVEPS
DTIENVKAKIQDKEGIPPDQ
QRLIFAGKQLEDGRTLSDYN
IQKESTLHLVLRLRGGAKKR
KKKSYTTPKKNKHKRKKVKL
AVLKYYKVDENGKISRLRRE
CPSDECGAGVFMASHFDRHY
CGKCCLTYCFNKPEDK
- binding_constants
| Data type | Count |
| binding constants | 4 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | STAM1 | 1 |
| 2 | ubiquitin | 2 |
Entities:
Entity 1, STAM1 178 residues - Formula weight is not available
| 1 | PRO | LEU | PHE | ALA | THR | ASN | PRO | PHE | ASP | GLN | ||||
| 2 | ASP | VAL | GLU | LYS | ALA | THR | SER | GLU | MET | ASN | ||||
| 3 | THR | ALA | GLU | ASP | TRP | GLY | LEU | ILE | LEU | ASP | ||||
| 4 | ILE | CYS | ASP | LYS | VAL | GLY | GLN | SER | ARG | THR | ||||
| 5 | GLY | PRO | LYS | ASP | CYS | LEU | ARG | SER | ILE | MET | ||||
| 6 | ARG | ARG | VAL | ASN | HIS | LYS | ASP | PRO | HIS | VAL | ||||
| 7 | ALA | MET | GLN | ALA | LEU | THR | LEU | LEU | GLY | ALA | ||||
| 8 | CYS | VAL | SER | ASN | CYS | GLY | LYS | ILE | PHE | HIS | ||||
| 9 | LEU | GLU | VAL | CYS | SER | ARG | ASP | PHE | ALA | SER | ||||
| 10 | GLU | VAL | SER | ASN | VAL | LEU | ASN | LYS | GLY | HIS | ||||
| 11 | PRO | LYS | VAL | CYS | GLU | LYS | LEU | LYS | ALA | LEU | ||||
| 12 | MET | VAL | GLU | TRP | THR | ASP | GLU | PHE | LYS | ASN | ||||
| 13 | ASP | PRO | GLN | LEU | SER | LEU | ILE | SER | ALA | MET | ||||
| 14 | ILE | LYS | ASN | LEU | LYS | GLU | GLN | GLY | VAL | THR | ||||
| 15 | PHE | PRO | ALA | ILE | GLY | SER | GLN | ALA | ALA | GLU | ||||
| 16 | GLN | ALA | LYS | ALA | SER | PRO | ALA | LEU | VAL | ALA | ||||
| 17 | LYS | ASP | PRO | GLY | THR | VAL | ALA | ASN | LYS | LYS | ||||
| 18 | GLU | GLU | GLU | ASP | LEU | ALA | LYS | ALA |
Entity 2, ubiquitin 156 residues - Formula weight is not available
| 1 | MET | GLN | ILE | PHE | VAL | LYS | THR | LEU | THR | GLY | ||||
| 2 | LYS | THR | ILE | THR | LEU | GLU | VAL | GLU | PRO | SER | ||||
| 3 | ASP | THR | ILE | GLU | ASN | VAL | LYS | ALA | LYS | ILE | ||||
| 4 | GLN | ASP | LYS | GLU | GLY | ILE | PRO | PRO | ASP | GLN | ||||
| 5 | GLN | ARG | LEU | ILE | PHE | ALA | GLY | LYS | GLN | LEU | ||||
| 6 | GLU | ASP | GLY | ARG | THR | LEU | SER | ASP | TYR | ASN | ||||
| 7 | ILE | GLN | LYS | GLU | SER | THR | LEU | HIS | LEU | VAL | ||||
| 8 | LEU | ARG | LEU | ARG | GLY | GLY | ALA | LYS | LYS | ARG | ||||
| 9 | LYS | LYS | LYS | SER | TYR | THR | THR | PRO | LYS | LYS | ||||
| 10 | ASN | LYS | HIS | LYS | ARG | LYS | LYS | VAL | LYS | LEU | ||||
| 11 | ALA | VAL | LEU | LYS | TYR | TYR | LYS | VAL | ASP | GLU | ||||
| 12 | ASN | GLY | LYS | ILE | SER | ARG | LEU | ARG | ARG | GLU | ||||
| 13 | CYS | PRO | SER | ASP | GLU | CYS | GLY | ALA | GLY | VAL | ||||
| 14 | PHE | MET | ALA | SER | HIS | PHE | ASP | ARG | HIS | TYR | ||||
| 15 | CYS | GLY | LYS | CYS | CYS | LEU | THR | TYR | CYS | PHE | ||||
| 16 | ASN | LYS | PRO | GLU | ASP | LYS |
Samples:
sample_1: STAM1, [U-15N], 0.1 mM; ubiquitin, [U-15N], 0.02 – 0.5 mM; sodium phosphate 20 mM; DTT 1 mM; sodium chloride 0.1 M; PMSF 0.5 mM; sodium azide 0.05 mM; H2O 95%; D2O 5%
sample_2: STAM10.01 – 0.2 mM; ubiquitin, [U-15N], 0.05 mM; sodium phosphate 20 mM; DTT 1 mM; sodium chloride 0.1 M; PMSF 0.5 mM; sodium azide 0.05 mM; H2O 95%; D2O 5%
sample_conditions_1: pH: 6.8; 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-15N HSQC | sample_2 | isotropic | sample_conditions_1 |
Software:
NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
NMRView, Johnson, One Moon Scientific - data analysis
KaleidaGraph v3.5, Synergy Software - data analysis
NMR spectrometers:
- Bruker DRX 500 MHz
- Bruker Avance 600 MHz
Related Database Links:
| BMRB | 16763 17065 |
| PDB | |
| DBJ | BAE26170 BAE28168 BAE34187 BAE37536 BAE40949 BAA04129 BAA09096 BAA11843 BAB27296 BAB31357 |
| GB | AAC50734 AAC52840 AAH30586 AAH44666 AAH55326 AAA28997 AAA36788 AAA53067 AAA57047 AAB03872 |
| REF | NP_001070310 NP_001102591 NP_003464 NP_035614 XP_001094352 NP_001013290 NP_001016172 NP_001029037 NP_001086065 NP_001129064 |
| SP | P70297 Q92783 P0CG50 P0CG69 P62978 P62979 P62982 |
| TPG | DAA23567 DAA24675 |
| EMBL | CAA44911 CAA57432 CAG12343 CAI73380 CAJ83451 |
| PIR | UQHUR7 |
| AlphaFold | P70297 Q92783 P0CG50 P0CG69 P62978 P62979 P62982 |