BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 25404

Title: Solution structure of VPg of porcine sapovirus   PubMed: 25753201

Deposition date: 2014-12-24 Original release date: 2015-04-13

Authors: Kim, Jeong-Sun; Hwang, Hyo-Jeong; Min, Hye Jung; Yun, Hyosuk; Cho, Kyoung-Oh; Pelton, Jeffrey; Wemmer, David; Lee, Chul Won

Citation: Hwang, Hyo-Jeong; Min, Hye Jung; Yun, Hyosuk; Pelton, Jeffrey; Wemmer, David; Cho, Kyoung-Oh; Kim, Jeong-Sun; Lee, Chul Won. "Solution structure of the porcine sapovirus VPg core reveals a stable three-helical bundle with a conserved surface patch"  Biochem. Biophys. Res. Commun. 459, 610-616 (2015).

Assembly members:
entity, polymer, 62 residues, 7382.292 Da.

Natural source:   Common Name: PEDV   Taxonomy ID: 28295   Superkingdom: Viruses   Kingdom: not available   Genus/species: Alphacoronavirus Porcine epidemic diarrhea virus

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):
entity: GAMAIALRDDEYDEWQDIIR DWRKEMTVQQFLDLKERALS GASDPDSQRYNAWLELRAKR LS

Data sets:
Data typeCount
13C chemical shifts277
15N chemical shifts67
1H chemical shifts443

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1entity1

Entities:

Entity 1, entity 62 residues - 7382.292 Da.

1   GLYALAMETALAILEALALEUARGASPASP
2   GLUTYRASPGLUTRPGLNASPILEILEARG
3   ASPTRPARGLYSGLUMETTHRVALGLNGLN
4   PHELEUASPLEULYSGLUARGALALEUSER
5   GLYALASERASPPROASPSERGLNARGTYR
6   ASNALATRPLEUGLULEUARGALALYSARG
7   LEUSER

Samples:

sample_1: entity, [U-99% 13C; U-99% 15N], 1 mM; potassium phosphate 10 mM; H2O 90%; D2O 10%

sample_conditions_1: ionic strength: 10 mM; pH: 6.2; pressure: 1 atm; temperature: 310 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_1isotropicsample_conditions_1
3D HCCH-COSYsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-15N TOCSYsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_1isotropicsample_conditions_1

Software:

X-PLOR_NIH, Schwieters, Kuszewski, Tjandra and Clore - refinement

NMR spectrometers:

  • Bruker DRX 600 MHz

Related Database Links:

PDB
GB AAF04560 AAR37376 ACP43737 AFX61394 AGW22217
REF NP_051035
SP Q9QEJ5

Download simulated HSQC data in one of the following formats:
CSV: Backbone or all simulated shifts
SPARKY: Backbone or all simulated shifts