BMRB Entry 15807
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR15807
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Title: The Solution Structure of gpV, the Major Tail Protein from Bacteriophage Lambda PubMed: 19251647
Deposition date: 2008-06-16 Original release date: 2008-11-14
Authors: Pell, Lisa; Kanelis, Voula; Howell, P. Lynne; Davidson, Alan
Citation: Pell, Lisa; Kanelis, Voula; Donaldson, Logan; Howell, Lynne; Davidson, Alan. "The phage lambda major tail protein structure reveals a common evolution for long-tailed phages and the type VI bacterial secretion system" Proc. Natl. Acad. Sci. USA 106, 4160-4165 (2009).
Assembly members:
gpV_protein, polymer, 156 residues, 16896.908 Da.
Natural source: Common Name: E. coli Taxonomy ID: 562 Superkingdom: Eubacteria Kingdom: not available Genus/species: Escherichia coli
Experimental source: Production method: recombinant technology Host organism: Escherichia coli
Entity Sequences (FASTA):
gpV_protein: GAMMPVPNPTMPVKGAGTTL
WVYKGSGDPYANPLSDVDWS
RLAKVKDLTPGELTAESYDD
SYLDDEDADWTATGQGQKSA
GDTSFTLAWMPGEQGQQALL
AWFNEGDTRAYKIRFPNGTV
DVFRGWVSSIGKAVTAKEVI
TRTVKVTNVGRPSMAE
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 539 |
| 15N chemical shifts | 149 |
| 1H chemical shifts | 914 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | gpV_protein | 1 |
Entities:
Entity 1, gpV_protein 156 residues - 16896.908 Da.
| 1 | GLY | ALA | MET | MET | PRO | VAL | PRO | ASN | PRO | THR | ||||
| 2 | MET | PRO | VAL | LYS | GLY | ALA | GLY | THR | THR | LEU | ||||
| 3 | TRP | VAL | TYR | LYS | GLY | SER | GLY | ASP | PRO | TYR | ||||
| 4 | ALA | ASN | PRO | LEU | SER | ASP | VAL | ASP | TRP | SER | ||||
| 5 | ARG | LEU | ALA | LYS | VAL | LYS | ASP | LEU | THR | PRO | ||||
| 6 | GLY | GLU | LEU | THR | ALA | GLU | SER | TYR | ASP | ASP | ||||
| 7 | SER | TYR | LEU | ASP | ASP | GLU | ASP | ALA | ASP | TRP | ||||
| 8 | THR | ALA | THR | GLY | GLN | GLY | GLN | LYS | SER | ALA | ||||
| 9 | GLY | ASP | THR | SER | PHE | THR | LEU | ALA | TRP | MET | ||||
| 10 | PRO | GLY | GLU | GLN | GLY | GLN | GLN | ALA | LEU | LEU | ||||
| 11 | ALA | TRP | PHE | ASN | GLU | GLY | ASP | THR | ARG | ALA | ||||
| 12 | TYR | LYS | ILE | ARG | PHE | PRO | ASN | GLY | THR | VAL | ||||
| 13 | ASP | VAL | PHE | ARG | GLY | TRP | VAL | SER | SER | ILE | ||||
| 14 | GLY | LYS | ALA | VAL | THR | ALA | LYS | GLU | VAL | ILE | ||||
| 15 | THR | ARG | THR | VAL | LYS | VAL | THR | ASN | VAL | GLY | ||||
| 16 | ARG | PRO | SER | MET | ALA | GLU |
Samples:
sample_1: sodium phosphate 50 mM; DSS 0.6 mM; sodium chloride 200 mM; D2O 8-10%; sodium azide 0.1%; gpV protein, [U-100% 13C; U-100% 15N], 1 mM
sample_2: gpV protein, [U-100% 13C; U-100% 15N], 1 mM; D2O 90-99%; DSS 0.6 mM; sodium phosphate 50 mM; sodium chloride 200 mM; sodium azide 0.1%
sample_conditions_1: ionic strength: 200 mM; pH: 6.8; pressure: 1 atm; temperature: 293 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-15N HSQC | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCO | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCACB | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-15N NOESY | sample_1 | isotropic | sample_conditions_1 |
| 3D CBCA(CO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D HCCH-TOCSY | sample_1 | isotropic | sample_conditions_1 |
| 3D HCCH-COSY | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-13C NOESY | sample_2 | isotropic | sample_conditions_1 |
| 3D C(CO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D H(CCO)NH | sample_1 | isotropic | sample_conditions_1 |
Software:
CYANA v2.1, Guntert, Mumenthaler and Wuthrich - structure solution
NMRView v5.2.2, Johnson, One Moon Scientific - chemical shift assignment
NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
NMR spectrometers:
- Varian INOVA 500 MHz
- Varian INOVA 800 MHz
Related Database Links:
| PDB | |
| DBJ | BAG76128 BAG77176 BAG77580 BAI23948 BAI29415 |
| EMBL | CAP75673 CAQ31259 CAQ97657 CAQ98435 CAR01926 |
| GB | AAA96545 AAN81615 AAZ89061 ABG69188 ACA77741 |
| REF | NP_040592 WP_000056697 WP_000056728 WP_000112332 WP_000223313 |
| SP | P03733 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts