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 25540

Title: NMR structure of the complex between the C-terminal domain of the Rift Valley fever virus protein NSs and the PH domain of the Tfb1 subunit of TFIIH.   PubMed: 25918396

Deposition date: 2015-03-18 Original release date: 2015-04-20

Authors: Cyr, Normand; de la Fuente, Cynthia; Lecoq, Lauriane; Guendel, Irene; Chabot, Philippe; Kehn-Hall, Kylene; Omichinski, James

Citation: Cyr, Normand; de la Fuente, Cynthia; Lecoq, Lauriane; Guendel, Irene; Chabot, Philippe; Kehn-Hall, Kylene; Omichinski, James. "A OmegaXaV motif in the Rift Valley fever virus NSs protein is essential for degrading p62, forming nuclear filaments and virulence."  Proc. Natl. Acad. Sci. U.S.A. 112, 6021-6026 (2015).

Assembly members:
RNA_polymerase_II_transcription_factor_B_subunit_1, polymer, 115 residues, 12903.807 Da.
Non-structural_protein_NS-S, polymer, 24 residues, 2566.504 Da.

Natural source:   Common Name: baker's yeast   Taxonomy ID: 4932   Superkingdom: Eukarota   Kingdom: Fungi   Genus/species: Saccharomyces cerevisiae

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

Entity Sequences (FASTA):
RNA_polymerase_II_transcription_factor_B_subunit_1: PSHSGAAIFEKVSGIIAINE DVSPAELTWRSTDGDKVHTV VLSTIDKLQATPASSEKMML RLIGKVDESKKRKDNEGNEV VPKPQRHMFSFNNRTVMDNI KMTLQQIISRYKDAD
Non-structural_protein_NS-S: GGGGYDVEMESEEESDDDGF VEVD

Data sets:
Data typeCount
13C chemical shifts597
15N chemical shifts143
1H chemical shifts953

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1RNA polymerase II transcription factor B subunit 11
2Non-structural protein NS-S2

Entities:

Entity 1, RNA polymerase II transcription factor B subunit 1 115 residues - 12903.807 Da.

1   PROSERHISSERGLYALAALAILEPHEGLU
2   LYSVALSERGLYILEILEALAILEASNGLU
3   ASPVALSERPROALAGLULEUTHRTRPARG
4   SERTHRASPGLYASPLYSVALHISTHRVAL
5   VALLEUSERTHRILEASPLYSLEUGLNALA
6   THRPROALASERSERGLULYSMETMETLEU
7   ARGLEUILEGLYLYSVALASPGLUSERLYS
8   LYSARGLYSASPASNGLUGLYASNGLUVAL
9   VALPROLYSPROGLNARGHISMETPHESER
10   PHEASNASNARGTHRVALMETASPASNILE
11   LYSMETTHRLEUGLNGLNILEILESERARG
12   TYRLYSASPALAASP

Entity 2, Non-structural protein NS-S 24 residues - 2566.504 Da.

Residues 242-246 were introduced to faciliate the purification and quantification of the protein.

1   GLYGLYGLYGLYTYRASPVALGLUMETGLU
2   SERGLUGLUGLUSERASPASPASPGLYPHE
3   VALGLUVALASP

Samples:

sample_1: RNA polymerase II transcription factor B subunit 1, [U-13C; U-15N], 1 mM; Non-structural protein NS-S 2 mM; H2O 90%; D2O 10%

sample_2: RNA polymerase II transcription factor B subunit 1, [U-13C; U-15N], 1 mM; Non-structural protein NS-S 2 mM; D2O 100%

sample_3: RNA polymerase II transcription factor B subunit 1, [U-15N], 0.5 mM; Non-structural protein NS-S 1 mM; H2O 90%; D2O 10%

sample_4: RNA polymerase II transcription factor B subunit 1 1 mM; Non-structural protein NS-S, [U-13C; U-15N], 0.5 mM; H2O 90%; D2O 10%

sample_5: RNA polymerase II transcription factor B subunit 1 0.5 mM; Non-structural protein NS-S, [U-13C; U-15N], 1 mM; D2O 100%

sample_6: RNA polymerase II transcription factor B subunit 1 0.4 mM; Non-structural protein NS-S, [U-15N], 0.2 mM; H2O 90%; D2O 10%

sample_conditions_1: pH: 6.5; pressure: 1 atm; temperature: 300 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_3isotropicsample_conditions_1
2D 1H-15N HSQCsample_6isotropicsample_conditions_1
3D HCCH-TOCSYsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_4isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCOsample_4isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D HNCACBsample_4isotropicsample_conditions_1
2D 1H-13C HSQCsample_2isotropicsample_conditions_1
2D 1H-13C HSQCsample_5isotropicsample_conditions_1
3D 1H-13C NOESYsample_2isotropicsample_conditions_1
3D 1H-13C NOESYsample_5isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_2isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_5isotropicsample_conditions_1
2D 1H-13C HSQC aromaticsample_2isotropicsample_conditions_1
2D 1H-13C HSQC aromaticsample_5isotropicsample_conditions_1
3D 1H-13C NOESY intermolecularsample_2isotropicsample_conditions_1
3D 1H-13C NOESY intermolecularsample_5isotropicsample_conditions_1

Software:

CcpNmr_Analysis v2.3.1 -

CNS -

TALOS-N -

NMR spectrometers:

  • Varian INOVA 500 MHz
  • Varian INOVA 600 MHz

Related Database Links:

SP P32776 P32776 P21698
REF NP_010597 NP_010597 YP_003848706
BMRB 6225 18229 18842 19791
PDB
DBJ GAA22531
EMBL CAY78811
GB AAA35143 AAB64747 AAU09707 AHY75284 AJP38011
TPG DAA12150

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