BMRB Entry 16763
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR16763
NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
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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).
PubMed: 19111546
Assembly members:
VHS, polymer, 138 residues, Formula weight is not available
ubiquitin, polymer, 76 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: GST
- binding_constants
| Data type | Count |
| binding constants | 2 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | VHS | 1 |
| 2 | ubiquitin | 2 |
Entities:
Entity 1, VHS 138 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 |
Entity 2, ubiquitin 76 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 |
Samples:
sample_1: VHS, [U-100% 15N], 0.1 mM; ubiquitin0.02 – 0.5 mM; sodium phosphate buffer 20 mM; DTT 1 mM; sodium chloride 0.1 mM; PMSF 0.5 mM; sodium azide 0.05%; H2O 95%; D2O 5%
sample_2: VHS 0.0.01-0.2 mM; ubiquitin, [U-100% 15N], 0.05 mM; sodium phosphate buffer 20 mM; DTT 1 mM; sodium chloride 0.1 mM; PMSF 0.5 mM; sodium azide 0.05%; 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 v2.3, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
NMRView, Johnson, One Moon Scientific - data analysis
KaleidaGraph v3.5, Synergy Software - non-linear regression
NMR spectrometers:
- Bruker DRX 500 MHz
- Bruker Avance 600 MHz
- Varian VNMRS 900 MHz
Related Database Links:
| BMRB | 17059 17065 11505 11547 15047 15410 15689 15866 15907 16228 16582 16626 16880 16885 16895 17059 17181 17239 17333 17439 17769 17919 18582 18583 18584 18610 18611 18737 19394 19399 19406 19412 19447 25070 25230 4245 4375 4983 5101 5387 6457 6466 6470 6488 68 7111 |
| PDB | |
| DBJ | BAE26170 BAE28168 BAE34187 BAE37536 BAE40949 BAA03983 BAA09860 BAA11842 BAA11843 BAA23486 |
| GB | AAC50734 AAC52840 AAH30586 AAH44666 AAH55326 AAA02769 AAA28154 AAA28997 AAA28998 AAA28999 |
| REF | NP_001070310 NP_001102591 NP_003464 NP_035614 XP_001094352 NP_001005123 NP_001006688 NP_001009117 NP_001009202 NP_001009286 |
| SP | P70297 Q92783 P0C273 P0C275 P0C276 P0CG47 P0CG48 |
| TPG | DAA23567 DAA18802 DAA20663 DAA20672 DAA24675 DAA28295 |
| EMBL | CAA25706 CAA26488 CAA28495 CAA30183 CAA30815 |
| PIR | I50437 I51568 I65237 JN0790 S13928 |
| PRF | 0412265A 1101405A 1212243A 1212243B 1212243C |
| TPD | FAA00319 |
| AlphaFold | P70297 Q92783 P0C273 P0C275 P0C276 P0CG47 P0CG48 |