BMRBj - BMREntryMaster

Found 1 Document (0.301 seconds)

BMRB: 30788

8THV

The FARFAR-NMR Ensemble of 29-mer HIV-1 Trans-activation Response Element RNA (N=20)

Authors

Shi, H., Rangadurai, A., Roy, R., Yesselman, J.D., Al-Hashimi, H.M.

Assembly

RNA (29-MER)

Entity

1. RNA (29-MER) (polymer, Thiol state: not present), 29 monomers, 9370.525 Da Detail

GGCAGAUCUG AGCCUGGGAG CUCUCUGCC

Formula weight

9370.525 Da

Source organism

Human immunodeficiency virus 1

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 100.0 %, Completeness: 90.5 %, Completeness (bb): 97.2 % Detail

Polymer type: polyribonucleotide

	Total	¹H	¹³C	¹⁵N
All	90.5 % (421 of 465)	86.7 % (222 of 256)	99.0 % (191 of 193)	50.0 % (8 of 16)
Suger, PO4	97.2 % (310 of 319)	95.4 % (166 of 174)	99.3 % (144 of 145)
Nucleobase	76.0 % (111 of 146)	68.3 % (56 of 82)	97.9 % (47 of 48)	50.0 % (8 of 16)
Aromatic	86.7 % (111 of 128)	87.5 % (56 of 64)	97.9 % (47 of 48)	50.0 % (8 of 16)

1. entity 1

GGCAGAUCUG AGCCUGGGAG CUCUCUGCC

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_E0, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
1	mtTAR_E0	[U-13C; U-15N]		1.0 mM

Sample #2

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
2	mtTAR_EI22	[U-13C; U-15N]		1.0 mM

Sample #3

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EII22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
3	mtTAR_EII22	[U-13C; U-15N]		1.0 mM

Sample #4

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI3, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
4	mtTAR_EI3	[U-13C; U-15N]		1.0 mM

Release date

2020-08-31

Citation

Rapid and accurate determination of atomistic RNA dynamic ensemble models using NMR and structure prediction
Shi, H., Rangadurai, A., Abou-Assi, H., Roy, R., Case, D.A., Herschlag, D., Yesselman, J.D., Al-Hashimi, H.M.
Nat. Commun. (2020), 11, 5531-5531, PubMed 33139729 , DOI 10.1038/s41467-020-19371-y , Abstract

Related entities 1. RNA (29-MER), : 1 : 13 : 9 : 4 entities Detail

Experiments performed 20 experiments Detail

1 2D 1H-13C HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_E0, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
1	mtTAR_E0	[U-13C; U-15N]		1.0 mM

2 2D 1H-13C HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
2	mtTAR_EI22	[U-13C; U-15N]		1.0 mM

3 2D 1H-13C HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EII22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
3	mtTAR_EII22	[U-13C; U-15N]		1.0 mM

4 2D 1H-13C HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI3, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
4	mtTAR_EI3	[U-13C; U-15N]		1.0 mM

5 2D 1H-13C TROSY

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_E0, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
1	mtTAR_E0	[U-13C; U-15N]		1.0 mM

6 2D 1H-13C TROSY

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI3, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
4	mtTAR_EI3	[U-13C; U-15N]		1.0 mM

7 2D 1H-13C TROSY

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EII22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
3	mtTAR_EII22	[U-13C; U-15N]		1.0 mM

8 2D 1H-13C TROSY

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
2	mtTAR_EI22	[U-13C; U-15N]		1.0 mM

9 2D 1H-13C S3CT HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI3, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
4	mtTAR_EI3	[U-13C; U-15N]		1.0 mM

10 2D 1H-13C S3CT HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EII22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
3	mtTAR_EII22	[U-13C; U-15N]		1.0 mM

11 2D 1H-13C S3CT HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
2	mtTAR_EI22	[U-13C; U-15N]		1.0 mM

12 2D 1H-13C S3CT HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_E0, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
1	mtTAR_E0	[U-13C; U-15N]		1.0 mM

13 2D 1H-15N HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI3, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
4	mtTAR_EI3	[U-13C; U-15N]		1.0 mM

14 2D 1H-15N HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EII22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
3	mtTAR_EII22	[U-13C; U-15N]		1.0 mM

15 2D 1H-15N HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
2	mtTAR_EI22	[U-13C; U-15N]		1.0 mM

16 2D 1H-15N HSQC

Instrument

Bruker AVANCE III - 600 MHz

Sample

State isotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_E0, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
1	mtTAR_E0	[U-13C; U-15N]		1.0 mM

17 2D 1H-15N HSQC without decoupling

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI3, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
4	mtTAR_EI3	[U-13C; U-15N]		1.0 mM

18 2D 1H-15N HSQC without decoupling

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EII22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
3	mtTAR_EII22	[U-13C; U-15N]		1.0 mM

19 2D 1H-15N HSQC without decoupling

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_EI22, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
2	mtTAR_EI22	[U-13C; U-15N]		1.0 mM

20 2D 1H-15N HSQC without decoupling

Instrument

Bruker AVANCE III - 600 MHz

Sample

State anisotropic, Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 298 K, pH 6.4, Details 1.0 mM 13C,15N mtTAR_E0, 90% H2O/10% D2O

#	Name	Isotope labeling	Type	Concentration
1	mtTAR_E0	[U-13C; U-15N]		1.0 mM

Chemical shift validation 3 contents Detail

#	Content subtype	Saveframe	Status	# of rows	Experiment type	Sequence coverage (%)
1	Assigned chemical shifts	assigned_chemical_shifts_1	OK	421		100.0 (chain: 1, length: 29)
1	Chemical shift references	chem_shift_reference_1	OK	3		No information

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	256	222	86.7
¹³C chemical shifts	193	191	99.0
¹⁵N chemical shifts	16	8	50.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	174	166	95.4
¹³C chemical shifts	145	144	99.3

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	82	56	68.3
¹³C chemical shifts	48	47	97.9
¹⁵N chemical shifts	16	8	50.0

Atom group	# of target shifts	# of assigned shifts	Completeness (%)
¹H chemical shifts	18	18	100.0
¹³C chemical shifts	18	17	94.4

Keywords FARFAR, FARFAR-NMR, HIV-1 RNA, RNA, VIRUS RNA

Input source #1: Assigned chemical shifts - Assigned chemical shifts	bmr30788_3.str
Diamagnetism of the molecular assembly	True (excluding Oxygen atoms)
Whether the assembly has a disulfide bond	None
Whether the assembly has a other bond	None
Whether the assembly contains a cyclic polymer	None
Overall data processing status	OK

Search

Query history

Resources

Search for primary databases

Search for subsidiary databases

Display

Hits per page

Statistics

Query Changes will take effect after "OK" button is selected.

Maximum hits

Default conjunction operator

Omni-box

Search filter

Sequence search (BLAST)

E-value

Query sequence coverage

Miscellaneous

The number of previewed publications

Completeness of assigned chemical shift

Sequence chart about top aligned regions

Sequence chart about interacting regions

Hit context with highlight

Link destinations for BMRB, PDB and EMDB

Found 1 Document (0.301 seconds)

BMRB: 30788

Sample #1

Sample #2

Sample #3

Sample #4

Related entities 1. RNA (29-MER), : 1 : 13 : 9 : 4 entities Detail

Experiments performed 20 experiments Detail

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Instrument

Sample

Chemical shift validation 3 contents Detail