BMRB Entry 5691
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR5691
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Title: Solution Structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii. Northeast Structural Genomics Consortium target JR19 PubMed: 14627742
Deposition date: 2003-02-12 Original release date: 2003-02-25
Authors: Aramini, James; Cort, John; Huang, Y.; Xiao, Rong; Acton, Thomas; Ho, Chi; Shih, Liang-yu; Kennedy, Micheal; Montelione, Gaetano
Citation: Aramini, James; Huang, Y.; Cort, John; Goldsmith-Fischman, S.; Xiao, Rong; Shih, Liang-yu; Ho, Chi; Liu, J.; Rost, B.; Honig, B.; Kennedy, M.; Acton, Thomas; Montelione, Gaetano. "Solution NMR structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii. " Protein Sci. 12, 2823-2830 (2003).
Assembly members:
RS28_PYRHO, polymer, 82 residues, 9365 Da.
Natural source: Common Name: P. horikoshii Taxonomy ID: 53953 Superkingdom: Archaea Kingdom: not available Genus/species: Pyrococcus horikoshii
Experimental source: Production method: recombinant technology Host organism: Esherichia coli
Entity Sequences (FASTA):
RS28_PYRHO: MAEDEGYPAEVIEIIGRTGT
TGDVTQVKVRILEGRDKGRV
IRRNVRGPVRVGDILILRET
EREAREIKSRRAAALEHHHH
HH
- assigned_chemical_shifts
- coupling_constants
| Data type | Count |
| 1H chemical shifts | 543 |
| 13C chemical shifts | 333 |
| 15N chemical shifts | 76 |
| coupling constants | 45 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | RS28_PYRHO, JR19 | 1 |
Entities:
Entity 1, RS28_PYRHO, JR19 82 residues - 9365 Da.
| 1 | MET | ALA | GLU | ASP | GLU | GLY | TYR | PRO | ALA | GLU | ||||
| 2 | VAL | ILE | GLU | ILE | ILE | GLY | ARG | THR | GLY | THR | ||||
| 3 | THR | GLY | ASP | VAL | THR | GLN | VAL | LYS | VAL | ARG | ||||
| 4 | ILE | LEU | GLU | GLY | ARG | ASP | LYS | GLY | ARG | VAL | ||||
| 5 | ILE | ARG | ARG | ASN | VAL | ARG | GLY | PRO | VAL | ARG | ||||
| 6 | VAL | GLY | ASP | ILE | LEU | ILE | LEU | ARG | GLU | THR | ||||
| 7 | GLU | ARG | GLU | ALA | ARG | GLU | ILE | LYS | SER | ARG | ||||
| 8 | ARG | ALA | ALA | ALA | LEU | GLU | HIS | HIS | HIS | HIS | ||||
| 9 | HIS | HIS |
Samples:
sample_1: RS28_PYRHO, [U-100% 13C; U-100% 15N], 1.0 mM; MES 20 mM; NaCl 100 mM; CaCl2 5 mM; DTT 10 mM; NaN3 0.02%; D2O 5%
sample_2: RS28_PYRHO, [U-100% 13C; U-100% 15N], 1.0 mM; MES 20 mM; NaCl 100 mM; CaCl2 5 mM; DTT 10 mM; NaN3 0.02%; D2O 100%
sample_3: RS28_PYRHO, [U-5% 13C; U-100% 15N], 1.0 mM; MES 20 mM; NaCl 100 mM; CaCl2 5 mM; DTT 10 mM; NaN3 0.02%; D2O 5%
sample_conditions_1: pH: 6.5; temperature: 293 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 1H,15N-HSQC (regular) | not available | not available | sample_conditions_1 |
| 1H,15N-HSQC (NH2 only) | not available | not available | sample_conditions_1 |
| 1H,15N-HSQC (full SW) | not available | not available | sample_conditions_1 |
| 1H,13C-HSQC (aliph) | not available | not available | sample_conditions_1 |
| 1H,13C-HSQC (arom) | not available | not available | sample_conditions_1 |
| 3D 1H-15N NOESY | not available | not available | sample_conditions_1 |
| 3D 1H-13C NOESY (aliph) | not available | not available | sample_conditions_1 |
| 3D 1H-13C NOESY (arom) | not available | not available | sample_conditions_1 |
| 4D 13C NOESY | not available | not available | sample_conditions_1 |
| HNCO | not available | not available | sample_conditions_1 |
| CBCA(CO)NH | not available | not available | sample_conditions_1 |
| HNCACB | not available | not available | sample_conditions_1 |
| CBCACO(CA)HA | not available | not available | sample_conditions_1 |
| HA(CA)NH | not available | not available | sample_conditions_1 |
| HA(CACO)NH | not available | not available | sample_conditions_1 |
| (H)CC(CO)NH TOCSY | not available | not available | sample_conditions_1 |
| H(CCCO)NH TOCSY | not available | not available | sample_conditions_1 |
| HcCH COSY | not available | not available | sample_conditions_1 |
| HcCH TOCSY | not available | not available | sample_conditions_1 |
| HNHA | not available | not available | sample_conditions_1 |
| 1H,13C-HSQC (high res) | not available | not available | sample_conditions_1 |
| H/D exchange (6 min) | not available | not available | sample_conditions_1 |
| H/D exchange (60 min) | not available | not available | sample_conditions_1 |
| H/D exchange (8 hrs) | not available | not available | sample_conditions_1 |
Software:
VNMR v6.1B - spectrometer, acquisition
NMRPipe v2.1 - data processing
Sparky v3.106 - peak picking
AUTOASSIGN v1.9 - automated assignment of backbone 1H, 13C, 15N chemical shifts
AUTOSTRUCTURE v1.1.2 - automated NOESY assignment, structure determination
HYPER v3.2 - data analysis
TALOS v2.1 - data analysis
DYANA v1.5 - structure refinement
PDBStat v3.27 - structure analysis
NMR spectrometers:
- Varian INOVA 800 MHz
- Varian INOVA 750 MHz
- Varian UNITY 600 MHz
- Varian INOVA 600 MHz
- Varian INOVA 500 MHz
Related Database Links:
| SWISS-PROT | P61030 Q8U159 P61029 |
| REF | NP_579097 NP_126358 NP_143359 |
| EMBL | CAB49589 |
| GenBank | AAL81492 |
| PDB | |
| DBJ | BAA30603 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts