BMRB Entry 19545

Title:
The Solution Structure of a cGCUUAg RNA Pentaloop from Bovine Enterovirus Vir404/03
Deposition date:
2013-10-11
Original release date:
2014-10-13
Authors:
Ihle, Yvonne; Zell, Roland; Gorlach, Matthias
Citation:

Citation: Ihle, Yvonne; Zell, Roland; Gorlach, Matthias. "The Solution Structure of a cGCUUAg RNA Pentaloop from Bovine Enterovirus Vir 404/03"  .

Assembly members:

Assembly members:
BEVSLD5, polymer, 19 residues, 6070.675 Da.

Natural source:

Natural source:   Common Name: bovine enterovirus   Taxonomy ID: 12064   Superkingdom: Viruses   Kingdom: not available   Genus/species: Enterovirus E

Experimental source:   Production method: enzymatic semisynthesis

Experimental source:

Natural source:   Common Name: bovine enterovirus   Taxonomy ID: 12064   Superkingdom: Viruses   Kingdom: not available   Genus/species: Enterovirus E

Experimental source:   Production method: enzymatic semisynthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
BEVSLD5: GGCGUUCGCUUAGAACGUC

Data sets:
Data typeCount
13C chemical shifts132
15N chemical shifts17
1H chemical shifts190

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1RNA (5'-R(P*GP*GP*CP*GP*UP*UP*CP*GP*CP*UP*UP*AP*GP*AP*AP*CP*GP*UP*C)-3')1

Entities:

Entity 1, RNA (5'-R(P*GP*GP*CP*GP*UP*UP*CP*GP*CP*UP*UP*AP*GP*AP*AP*CP*GP*UP*C)-3') 19 residues - 6070.675 Da.

Residues 55-57 and 71-73 are non-native and were attached facilitating transcription and purification.

1   GGCGUUCGCU
2   UAGAACGUC

Samples:

unl-BEVSLD5: BEVSLD5 1.1 mM; potassium phosphate 10 mM; potassium chloride 40 mM; EDTA 0.2 mM; H2O 90%; D2O 10%

BEVSLD5_1: BEVSLD5, [U-100% 13C; U-100% 15N], 0.9 mM; potassium phosphate 10 mM; potassium chloride 40 mM; EDTA 0.2 mM; D2O 100%

sample_conditions_1: ionic strength: 50 mM; pH: 6.2; pressure: 1 atm; temperature: 293 K

sample_conditions_2: ionic strength: 50 mM; pH: 6.2; pressure: 1 atm; temperature: 278 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-13C HSQC aliphaticunl-BEVSLD5isotropicsample_conditions_1
2D 1H-13C HSQC aromaticunl-BEVSLD5isotropicsample_conditions_1
2D 1H-1H COSYunl-BEVSLD5isotropicsample_conditions_1
2D 1H-1H NOESYunl-BEVSLD5isotropicsample_conditions_1
2D DQF-COSYunl-BEVSLD5isotropicsample_conditions_1
2D 1H-1H TOCSYunl-BEVSLD5isotropicsample_conditions_1
2D HcncH + 2D HccH-COSYBEVSLD5_1isotropicsample_conditions_1
2D HcnH + 2D HccH-TOCSYBEVSLD5_1isotropicsample_conditions_1
3D HCCH-COSYBEVSLD5_1isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticBEVSLD5_1isotropicsample_conditions_1
3D 1H-13C NOESY aromaticBEVSLD5_1isotropicsample_conditions_1
2D 1H-1H NOESYunl-BEVSLD5isotropicsample_conditions_2
2D 1H-13C HSQC aliphaticBEVSLD5_1isotropicsample_conditions_2
2D 1H-13C HSQC aromaticBEVSLD5_1isotropicsample_conditions_2
2D 1H-1H TOCSYunl-BEVSLD5isotropicsample_conditions_2

Software:

TOPSPIN v2.1, Bruker Biospin - collection, processing

CARA v1.5.5, Rochus Keller - chemical shift assignment, peak picking

CYANA v1.1, Guntert, Mumenthaler and Wuthrich - structure solution

CNS v1.3, Brunger, Adams, Clore, Gros, Nilges and Read - refinement

NMR spectrometers:

  • Bruker Avance 600 MHz
  • Bruker Avance 750 MHz

Related Database Links:

GB DQ092771.1