BMRB Entry 5007

Name: SOLUTION STRUCTURE OF THE VS RIBOZYME SUBSTRATE STEM-LOOP
Published: 2003-07-01

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PDB ID: 1hwq
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR5007
MolProbity Validation Chart

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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 THE VS RIBOZYME SUBSTRATE STEM-LOOP

Deposition date:

2001-05-07

Original release date:

2003-07-01

Authors:

Flinders, J.; Dieckmann, T.

Citation:

Citation: Flinders, J.; Dieckmann, T.. "A pH Controlled Conformational Switch In the Cleavage Site of the VS Ribozyme Substrate RNA" J. Mol. Biol. 308, 665-679 (2001).
PubMed: 11350168

Assembly members:

Assembly members:
VS Ribozyme, polymer, 30 residues, 9900 Da.

Natural source:

Natural source: Common Name: Neurospora crassa Taxonomy ID: 5141 Superkingdom: Eukaryota Kingdom: Fungi Genus/species: Neurospora crassa

Experimental source:

Experimental source: Production method: enzymatic semisynthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
VS Ribozyme: GGUGCGAAGGGCGUCGUCGC CCCGAGCGCC

Data sets:

assigned_chemical_shifts
- chemical_shift_set_1

Data type	Count
13C chemical shifts	107
15N chemical shifts	16
1H chemical shifts	177

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	VS RIBOZYME SUBSTRATE RNA	1

Entities:

Entity 1, VS RIBOZYME SUBSTRATE RNA 30 residues - 9900 Da.

1	G	G	U	G	C	G	A	A	G	G
2	G	C	G	U	C	G	U	C	G	C
3	C	C	C	G	A	G	C	G	C	C

Samples:

sample_1: VS Ribozyme 1.5 mM

sample_2: VS Ribozyme, [U-98% 13C; U-98% 15N], 1.0 mM

sample_3: VS Ribozyme, [98%-13C; 98%-15N]-Ade, 1.0 mM

sample_cond_1: ionic strength: 5 mM; pH: 6.0; pressure: 1 atm; temperature: 274 K

sample_cond_2: ionic strength: 5 mM; pH*: 6.0; pressure: 1 atm; temperature: 293 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-1H NOESY	not available	not available	not available
2D 1H-13C HSQC	not available	not available	not available
2D 1H-13C CT-HSQC	not available	not available	not available
2D 1H-15N HMQC	not available	not available	not available
2D 1H-1H DQF-COSY	not available	not available	not available
3D 13C-1H-1H NOESY	not available	not available	not available
3D 1H-13C-1H HCCH-COSY	not available	not available	not available

Software:

xwinnmr v2.6 - collection, processing

XEASY v1.3.13 - data analysis

CNS v1.0 - structure solution

NMR spectrometers:

Bruker DRX 600 MHz