BMRB Entry 18677
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR18677
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Title: 1H, 13C and 15N Assignments of the RING domain in ubiquitin ligase gp78 PubMed: 23942235
Deposition date: 2012-08-27 Original release date: 2013-08-26
Authors: Das, Ranabir; Linag, Yuhe; Mariano, Jennifer; Li, Jess; Huang, Tao; King, Aaren; Weissman, Allan; Ji, Xinhua; Byrd, R. Andrew
Citation: Das, Ranabir; Liang, Yu-He; Mariano, Jennifer; Li, Jess; Huang, Tao; King, Aaren; Tarasov, Sergey; Weissman, Allan; Ji, Xinhua; Byrd, R. Andrew. "Allosteric regulation of E2:E3 interactions promote a processive ubiquitination machine." EMBO J. 32, 2504-2516 (2013).
Assembly members:
gp78RING, polymer, 58 residues, 6473.385 Da.
ZINC ION, non-polymer, 65.409 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):
gp78RING: AVATPEELAVNNDDCAICWD
SMQAARKLPCGHLFHNSCLR
SWLEQDTSCPTCRMSLNI
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 232 |
| 15N chemical shifts | 70 |
| 1H chemical shifts | 352 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | RING domain in ubiquitin ligase gp78 | 1 |
| 2 | ZINC ION_1 | 2 |
| 3 | ZINC ION_2 | 2 |
Entities:
Entity 1, RING domain in ubiquitin ligase gp78 58 residues - 6473.385 Da.
| 1 | ALA | VAL | ALA | THR | PRO | GLU | GLU | LEU | ALA | VAL | ||||
| 2 | ASN | ASN | ASP | ASP | CYS | ALA | ILE | CYS | TRP | ASP | ||||
| 3 | SER | MET | GLN | ALA | ALA | ARG | LYS | LEU | PRO | CYS | ||||
| 4 | GLY | HIS | LEU | PHE | HIS | ASN | SER | CYS | LEU | ARG | ||||
| 5 | SER | TRP | LEU | GLU | GLN | ASP | THR | SER | CYS | PRO | ||||
| 6 | THR | CYS | ARG | MET | SER | LEU | ASN | ILE |
Entity 2, ZINC ION_1 - Zn - 65.409 Da.
| 1 | ZN |
Samples:
sample_1: gp78RING, [U-100% 13C; U-100% 15N], 0.7 – 1 mM; TRIS 50 mM; TCEP 2 mM; sodium azide 0,2 mM; H2O 90%; D2O 10%
sample_conditions_1: ionic strength: 0 M; pH: 7.2; 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-13C HSQC | sample_1 | isotropic | sample_conditions_1 |
| 3D CBCA(CO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCACB | sample_1 | isotropic | sample_conditions_1 |
| 3D C(CO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D H(CCO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-15N NOESY | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-15N TOCSY | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCO | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-13C NOESY | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-13C NOESY aromatic | sample_1 | isotropic | sample_conditions_1 |
Software:
X-PLOR NIH, Schwieters, Kuszewski, Tjandra and Clore - structure solution
SPARKY, Goddard - chemical shift assignment, data analysis
NMRDraw, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
NMR spectrometers:
- Varian INOVA 600 MHz
- Varian INOVA 500 MHz
Related Database Links:
| PDB | |
| DBJ | BAE01277 BAE34049 BAE41974 BAE87377 BAK63135 |
| GB | AAD56721 AAD56722 AAH17043 AAH34538 AAH40338 |
| REF | NP_001039439 NP_001135 NP_001267243 NP_035917 XP_001091030 |
| SP | Q9R049 Q9UKV5 |
| TPG | DAA20037 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts