BMRB Entry 30511

Title:
Solution structure of 7SK stem-loop 1 with HIV-1 Tat RNA Binding Domain
Deposition date:
2018-08-31
Original release date:
2018-10-24
Authors:
Pham, V.; D'Souza, V.
Citation:

Citation: Pham, V.; Salguero, C.; Khan, S.; Meagher, J.; Brown, W.; Humbert, N.; de Rocquigny, H.; Smith, J.; D'Souza, V.. "HIV-1 Tat interactions with cellular 7SK and viral TAR RNAs identifies dual structural mimicry"  Nat. Commun. 9, 4266-4266 (2018).
PubMed: 30323330

Assembly members:

Assembly members:
entity_1, polymer, 57 residues, 18358.910 Da.
entity_2, polymer, 17 residues, 2162.533 Da.

Natural source:

Natural source:   Common Name: Human   Taxonomy ID: 9606   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Homo sapiens

Experimental source:

Experimental source:   Production method: chemical synthesis

Entity Sequences (FASTA):

Data sets:
Data typeCount
13C chemical shifts134
15N chemical shifts47
1H chemical shifts336

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1entity_11
2entity_22

Entities:

Entity 1, entity_1 57 residues - 18358.910 Da.

1   GGGAUCUGUC
2   ACCCCAUUGA
3   UCGCCGAGAG
4   GCUGAUCUGG
5   RYUGGRYUAGGC
6   GGGUCCC

Entity 2, entity_2 17 residues - 2162.533 Da.

1   GLYILESERTYRGLYARGLYSLYSARGARG
2   GLNARGARGARGALAHISGLN

Samples:

sample_1: 7SK Stem-loop 1 RNA 0.5 ± 0.1 mM; HIV-1 Tat RNA Binding Domain, [U-13C; U-15N], 0.5 ± 0.1 mM; phosphates 10 mM; NaCl 70 mM

sample_2: 7SK Stem-loop 1 RNA 0.5 ± 0.1 mM; HIV-1 Tat RNA Binding Domain 0.5 ± 0.1 mM; phosphates 10 mM; NaCl 70 mM

sample_3: 7SK Stem-loop 1 RNA 0.5 ± 0.1 mM; HIV-1 Tat RNA Binding Domain, [U-13C; U-15N], 0.5 ± 0.1 mM; phosphates 10 mM; NaCl 70 mM

sample_4: 7SK Stem-loop 1 RNA, [U-13C; U-15N], 0.5 ± 0.1 mM; HIV-1 Tat RNA Binding Domain 0.5 ± 0.1 mM; phosphates 10 mM; NaCl 70 mM

sample_5: 7SK Stem-loop 1 RNA, [U-13C; U-15N], 0.5 ± 0.1 mM; HIV-1 Tat RNA Binding Domain 0.5 ± 0.1 mM; phosphates 10 mM; NaCl 70 mM

sample_6: 7SK Stem-loop 1 RNA 0.5 ± 0.1 mM; HIV-1 Tat RNA Binding Domain 0.5 ± 0.1 mM; phosphates 10 mM; NaCl 70 mM

sample_conditions_1: ionic strength: 80 mM; pH: 5.4; pressure: 100000 Pa; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H NOESYsample_6isotropicsample_conditions_1
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-15N HSQCsample_4isotropicsample_conditions_1
2D 1H-13C HSQCsample_3isotropicsample_conditions_1
2D 1H-1H NOESYsample_2isotropicsample_conditions_1
2D 1H-13C HSQCsample_5isotropicsample_conditions_1

Software:

TOPSPIN, Bruker Biospin - collection

NMRView, Johnson, One Moon Scientific - chemical shift assignment, peak picking

CYANA, Guntert, Mumenthaler and Wuthrich - data analysis, processing, structure calculation

AMBER, Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, and Kollman - refinement

NMR spectrometers:

  • Bruker DMX 700 MHz

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