BMRB Entry 25441

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR25441

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Title:
Backbone chemical shift assignments for human Rotavirus P[19] VP8* domain of VP4
Deposition date:
2015-01-19
Original release date:
2015-07-29
Authors:
Ramelot, Theresa; Liu, Yang; Huang, Penwei; Liu, Yan; Feizi, Ten; Zhong, Weiming; Wu, Fang-Tzy; Tan, Ming; Kennedy, Michael; Jiang, Xi
Citation:

Citation: Liu, Yang; Ramelot, Theresa; Huang, Pengwei; Liu, Yan; Li, Zhen; Feizi, Ten; Zhong, Weiming; Wu, Fang-Tzy; Tan, Ming; Kennedy, Michael; Jiang, Xi. "Glycan Specificity of P[19] Rotavirus and Comparison with Those of Related P Genotypes."  J. Virol. 90, 9983-9996 (2016).
PubMed: 27558427

Assembly members:

Assembly members:
VP8, polymer, 188 residues, Formula weight is not available

Natural source:

Natural source:   Common Name: human rotavirus   Taxonomy ID: 10912   Superkingdom: Viruses   Kingdom: not available   Genus/species: not available Rotavirus

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: human Rotovirus   Vector: PGEX-4T-1

Entity Sequences (FASTA):

Entity Sequences (FASTA):
VP8: GSAPVNWGHGEINDSTTVEP VLDGPYQPVTFKPPNDYWIL INSNSNGVVLEGTNNTDVWV AIISIEPNVNSESRQYSLFG VNKQITVVNTSNKWKFMEMF RNNSNAEFQHKRTLTSSTKL VGILKHGGRLWTYHGETPNA TTDYSTTSNLNEISVTTYAE FYIIPRSQESKCTEYINTGL PPMQNTRN

Data sets:
Data typeCount
13C chemical shifts466
15N chemical shifts142
1H chemical shifts142

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1VP81

Entities:

Entity 1, VP8 188 residues - Formula weight is not available

GS is non-native from cloning

1   GLYSERALAPROVALASNTRPGLYHISGLY
2   GLUILEASNASPSERTHRTHRVALGLUPRO
3   VALLEUASPGLYPROTYRGLNPROVALTHR
4   PHELYSPROPROASNASPTYRTRPILELEU
5   ILEASNSERASNSERASNGLYVALVALLEU
6   GLUGLYTHRASNASNTHRASPVALTRPVAL
7   ALAILEILESERILEGLUPROASNVALASN
8   SERGLUSERARGGLNTYRSERLEUPHEGLY
9   VALASNLYSGLNILETHRVALVALASNTHR
10   SERASNLYSTRPLYSPHEMETGLUMETPHE
11   ARGASNASNSERASNALAGLUPHEGLNHIS
12   LYSARGTHRLEUTHRSERSERTHRLYSLEU
13   VALGLYILELEULYSHISGLYGLYARGLEU
14   TRPTHRTYRHISGLYGLUTHRPROASNALA
15   THRTHRASPTYRSERTHRTHRSERASNLEU
16   ASNGLUILESERVALTHRTHRTYRALAGLU
17   PHETYRILEILEPROARGSERGLNGLUSER
18   LYSCYSTHRGLUTYRILEASNTHRGLYLEU
19   PROPROMETGLNASNTHRARGASN

Samples:

sample_1: VP8, [U-100% 13C; U-100% 15N], 1.1 ± 0.1 mM; Tris-HCl 10 ± .5 mM; sodium chloride 100 ± 1 mM; EDTA 1 ± .05 mM; H2O 90%; D2O 10%

sample_conditions_1: ionic strength: 100 mM; pH: 8.0; pressure: 1 atm; temperature: 293 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
3D HN(CO)CAsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HN(CO)CAsample_1isotropicsample_conditions_1
3D HBHA(CO)NHsample_1isotropicsample_conditions_1

Software:

SPARKY v3.113, Goddard - peak picking

PINE v2.0, Bahrami, Markley, Assadi, and Eghbalnia - chemical shift assignment

NMR spectrometers:

  • Bruker Avance II 850 MHz
  • Varian Inova 600 MHz

Related Database Links:

GB DQ887060

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks