BMRB Entry 6756

Name: Solution structure of domain 6 from the ai5(gamma) group II intron
Published: 2007-03-29

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR6756

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

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Title:

Solution structure of domain 6 from the ai5(gamma) group II intron

Deposition date:

2005-07-29

Original release date:

2007-03-29

Authors:

Erat, Michele; Sigel, Roland

Citation:

Citation: Erat, Michele; Zerbe, Oliver; Fox, Thomas; Sigel, Roland. "Solution Structure of Domain 6 from a Self-Splicing Group II Intron Ribozyme: A Mg(2+) Binding Site is Located Close to the Stacked Branch Adenosine" Chembiochem. 8, 306-314 (2007).
PubMed: 17200997

Assembly members:

Assembly members:
Domain 6, polymer, 27 residues, 8787 Da.
MG, non-polymer, 24.305 Da.

Natural source:

Natural source: Common Name: Saccharomyces cerevisiae Taxonomy ID: 4932 Superkingdom: Eukaryota Kingdom: Fungi Genus/species: Saccharomyces cerevisiae

Experimental source:

Experimental source: Production method: enzymatic semisynthesis

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Domain 6: GGAGCGGGGGUGUAAACCUA UCGCUCC

Data sets:

assigned_chemical_shifts
- chem_shift_list_1

Data type	Count
13C chemical shifts	143
15N chemical shifts	11
1H chemical shifts	235

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	D6short	1
2	MAGNESIUM (II) ION	2

Entities:

Entity 1, D6short 27 residues - 8787 Da.

1

G

A

G

C

G

2

U

G

U

A

C

U

A

3

U

C

G

C

U

C

Entity 2, MAGNESIUM (II) ION - Mg - 24.305 Da.

1

MG

Samples:

sample_1: Domain 6 0.6 ± 0 mM; D2O 99.999%; KCL 100 mM; EDTA 10 uM

sample_2: Domain 6 0.6 ± 0 mM; D2O 10%; H2O 90%; KCL 100 mM; EDTA 10 uM

sample_3: Domain 6, [U-13C; U-15N], 0.6 ± 0 mM; D2O 99.999%; KCL 100 mM; EDTA 10 uM

conditions_1: ionic strength: 1.1 M; pH: 6.8; temperature: 303 K

conditions_2: ionic strength: 1.1 M; pH: 6.8; temperature: 275 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H1H Noesy in D2O and H2O	not available	not available	not available
2D 1H1H Tocsy	not available	not available	not available
13C1H HSQC	not available	not available	not available
15N1H HSQC	not available	not available	not available
HCCH-Tocsy	not available	not available	not available
HCCH-Cosy	not available	not available	not available

Software:

No software information available

NMR spectrometers:

Bruker AVANCE 700 MHz
Bruker DRX 500 MHz