BMRB Entry 6814

Name: Class I GTP aptamer
Published: 2007-07-16

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PDB ID: 2au4
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR6814
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:

Class I GTP aptamer

Deposition date:

2005-09-09

Original release date:

2007-07-16

Authors:

Carothers, J.; Davis, J.; Chou, J.; Szostak, J.

Citation:

Citation: Carothers, J.; Davis, J.; Chou, J.; Szostak, J.. "Solution structure of an informationally complex high-affinity RNA aptamer to GTP" RNA 12, 567-579 (2006).
PubMed: 16510427

Assembly members:

Assembly members:
Class I RNA aptamer to GTP, polymer, 41 residues, Formula weight is not available
GTP, non-polymer, 523.180 Da.

Natural source:

Natural source: Common Name: not available Taxonomy ID: not available Superkingdom: not available Kingdom: not available Genus/species: not available not available

Experimental source:

Experimental source: Production method: chemical synthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Class I RNA aptamer to GTP: GGGACGAAGUGGUUGGGCGC UUCGGCGUGUGAAAACGUCU C

Data sets:

assigned_chemical_shifts
- chemical_shift_set_1
- chemical_shift_set_2

Data type	Count
1H chemical shifts	295

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	Class I RNA aptamer to GTP	1
2	GUANOSINE-5'-TRIPHOSPHATE	2

Entities:

Entity 1, Class I RNA aptamer to GTP 41 residues - Formula weight is not available

1

G

A

C

G

A

G

U

2

G

U

G

C

G

C

3

U

C

G

C

G

U

G

U

4

G

A

C

G

U

C

U

5

C

Entity 2, GUANOSINE-5'-TRIPHOSPHATE - C10 H16 N5 O14 P3 - 523.180 Da.

1

GTP

Samples:

sample_1: Class I RNA aptamer to GTP, [U-15N; U-13C], 3.3 mM; GUANOSINE-5'-TRIPHOSPHATE 3.63 mM; phosphate buffer 10%; D2O 99%

sample_2: Class I RNA aptamer to GTP, [U-15N; U-13C], 0.9 mM; GUANOSINE-5'-TRIPHOSPHATE 0.99 mM; phosphate buffer 10%; D2O 99%

sample_3: Class I RNA aptamer to GTP, [U-15N; U-13C], 3.3 mM; GUANOSINE-5'-TRIPHOSPHATE 3.63 mM; phosphate buffer 10%; D2O 5%; H2O 95%

sample_4: Class I RNA aptamer to GTP, [U-15N; U-13C], 0.9 mM; GUANOSINE-5'-TRIPHOSPHATE 0.99 mM; phosphate buffer 10%; D2O 5%; H2O 95%

sample_cond_1: ionic strength: 80 mM; pH: 6.1; pressure: 1 atm; temperature: 288 K

sample_cond_2: ionic strength: 80 mM; pH: 6.1; pressure: 1 atm; temperature: 303 K

sample_cond_3: ionic strength: 80 mM; pH: 6.1; pressure: 1 atm; temperature: 298 K

sample_cond_4: ionic strength: 80 mM; pH: 6.8; pressure: 1 atm; temperature: 303 K

Experiments:

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

Software:

NMRPipe v2.3 - processing

X-PLOR NIH v2.9.2 - structure solution, refinement

SPARKY v3 - data analysis

NMR spectrometers:

Bruker AVANCE 500 MHz