BMRB Entry 4780

Click here to enlarge.

PDB ID: 1f6u
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR4780
MolProbity Validation Chart

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry

Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

Select model:

I am color blind

Download raw data. Direct link to this display. Help

Title:

NMR Structure of Stem-loop SL2 of the HIV-1 Psi RNA Packaging Signal Reveals a Novel A-U-A Base-triple Platform

Deposition date:

2000-07-10

Original release date:

2002-04-04

Authors:

Amarasinghe, Gaya; De Guzman, Roberto; Turner, Ryan; Summers, Michael

Citation:

Citation: Amarasinghe, Gaya; De Guzman, Roberto; Turner, Ryan; Summers, Michael. "NMR Structure of Stem-loop SL2 of the HIV-1 Psi RNA Packaging Signal Reveals a Novel A-U-A Base-triple Platform" J. Mol. Biol. 299, 145-156 (2000).
PubMed: 10860728

Assembly members:

Assembly members:
HIV-1 SL2 stem loop, polymer, 19 residues, 6371 Da.

Natural source:

Natural source: Common Name: HIV-1 Taxonomy ID: 12721 Superkingdom: viruses Kingdom: not available Genus/species: Lentivirus Human Immunodeficiency virus

Experimental source:

Experimental source: Production method: enzymatic semisynthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
HIV-1 SL2 stem loop: GGCGACUGGUGAGUACGCC

Data sets:

assigned_chemical_shifts
- sl2rna

Data type	Count
13C chemical shifts	106
1H chemical shifts	134

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	SL2	1

Entities:

Entity 1, SL2 19 residues - 6371 Da.

1

G

C

G

A

C

U

G

U

2

G

A

G

U

A

C

G

C

Samples:

sample_1: HIV-1 SL2 stem loop0.6 – 1.2 mM

sample_2: HIV-1 SL2 stem loop, [U-13C; U-15N], 0.8 mM

Ex-cond-1: pH*: 6.5; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D NOESY	not available	not available	not available
2D TOCSY	not available	not available	not available
2D DQF COSY	not available	not available	not available
1H-13C HMQC	not available	not available	not available
1H,1H,13C HMQC-NOESY	not available	not available	not available
1H,1H,13C HCCH-COSY	not available	not available	not available
1H,1H,13C HCCH-TOCSY	not available	not available	not available
1H,1H,15N HSQC-NOESY	not available	not available	not available

Software:

xwinnmr v2.6 - Data aquisition from the NMR

NMRPipe v1.0 - Data processing

NMRView v3.0 - Data analysis

DYANA v1.5 - Structure calculation

CNS v1.0 - Structure refinement and energy minimization

NMR spectrometers:

Bruker AVANCE DMX 600 MHz
Bruker AVANCE DRX 800 MHz