BMRB Entry 5773

Name: Solution structure of HIV-1 Stem Loop SL1
Published: 2003-05-01

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PDB ID: 1n8x
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR5773
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Nicholas Rego and David Koes
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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Solution structure of HIV-1 Stem Loop SL1

Deposition date:

2003-03-15

Original release date:

2003-05-01

Authors:

Lawrence, D.; Stover, C.; Noznitsky, J.; Wu, Z.; Summers, M.

Citation:

Citation: Lawrence, D.; Stover, C.; Noznitsky, J.; Wu, Z.; Summers, M.. "Structure of the Intact Stem and Bulge of HIV-1 Psi-RNA Stem Loop SL1" J. Mol. Biol. 326, 529-542 (2003).
PubMed: 12559920

Assembly members:

Assembly members:
HIV-1 Stem loop SL1, polymer, 36 residues, 12363 Da.

Natural source:

Natural source: Common Name: HIV-1 Taxonomy ID: 11676 Superkingdom: Viruses Kingdom: not available Genus/species: Lentivirus HIV-1

Experimental source:

Experimental source: Production method: enzymatic semisynthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
HIV-1 Stem loop SL1: GGACUCGGCUUGCUGGAGAC GGCAAGAGGCGAGUCC

Data sets:

assigned_chemical_shifts
- chemical_shift_set_1

Data type	Count
13C chemical shifts	237
1H chemical shifts	272

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	HIV-1 STEM LOOP SL1 MONOMERIC RNA	1

Entities:

Entity 1, HIV-1 STEM LOOP SL1 MONOMERIC RNA 36 residues - 12363 Da.

1

G

A

C

U

C

G

C

U

2

U

G

C

U

G

A

G

A

C

3

G

C

A

G

A

G

C

4

G

A

G

U

C

Samples:

sample_1: HIV-1 Stem loop SL1, [U-13C; U-15N], 1.0 mM; Tris-Cl 10 mM; Na-EDTA 0.1 mM; D2O 100%

sample_2: HIV-1 Stem loop SL1, [13C, 15N]-cytidine, 1.0 mM; Tris-Cl 10 mM; Na-EDTA 0.1 mM; D2O 100%

sample_3: HIV-1 Stem loop SL1 1.0 mM; Tris-Cl 10 mM; Na-EDTA 0.1 mM; D2O 100%

sample_4: HIV-1 Stem loop SL1, [U-13C; U-15N], 1.0 mM; Tris-Cl 10 mM; Na-EDTA 0.1 mM; Pf1 phage 17 mg/ml

sample_5: HIV-1 Stem loop SL1 1.0 mM; Tris-Cl 10 mM; Na-EDTA 0.1 mM; D2O 10%; H2O 90%

sample_cond_1: pH: 6.0; pressure: 1 atm; temperature: 308 K

sample_cond_2: pH: 8.0; pressure: 1 atm; temperature: 308 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 13C-separated NOESY	not available	not available	not available
4D 13C-separated NOESY	not available	not available	not available
3D 13C-separated ROESY	not available	not available	not available
IPAP H-COUPLED CT-HSQC	not available	not available	not available
2D NOESY	not available	not available	not available
2D ROESY	not available	not available	not available

Software:

xwinnmr v2.6 - collection

NMRPipe v2.1 - processing

NMRView v5.0.3 - data analysis

DYANA v1.5 - refinement

NMR spectrometers:

Bruker DMX 600 MHz
Bruker DMX 800 MHz