BMRB Entry 17961

Name: S. cerevisiae U2/U6 snRNA complex
Published: 2012-02-12

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PDB ID: 2lkr
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR17961
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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:

S. cerevisiae U2/U6 snRNA complex

Deposition date:

2011-09-26

Original release date:

2012-02-12

Authors:

Burke, Jordan; Sashital, Dipali; Zuo, Xiaobing; Wang, Yun-Xing; Butcher, Samuel

Citation:

Citation: Burke, Jordan; Sashital, Dipali; Zuo, Xiaobing; Wang, Yun-Xing; Butcher, Samuel. "Structure of the yeast U2/U6 snRNA complex." RNA 18, 673-683 (2012).
PubMed: 22328579

Assembly members:

Assembly members:
U2U6111, polymer, 111 residues, Formula weight is not available

Natural source:

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

Experimental source:

Experimental source: Production method: cell free synthesis Host organism: E. coli - cell free Vector: pUC19

Entity Sequences (FASTA):

Entity Sequences (FASTA):
U2U6111: GGCAAUACAGAGAUGAUCAG CAGUUCCCCUGCAUAAGGAU GAACCGUUUUACAAAGAGAU UUCUUCGGGAAUCUCUUUGC CUUUUGGCUUAGAUCAAGUG UAGUAUCUGUC

Data sets:

assigned_chemical_shifts

Data type	Count
15N chemical shifts	54
1H chemical shifts	140

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	U2U6111	1

Entities:

Entity 1, U2U6111 111 residues - Formula weight is not available

1

G

C

A

U

A

C

A

G

2

A

G

A

U

G

A

U

C

A

G

3

C

A

G

U

C

U

4

G

C

A

U

A

G

A

U

5

G

A

C

G

U

6

A

C

A

G

A

G

A

U

7

U

C

U

C

G

A

8

A

U

C

U

C

U

G

C

9

C

U

G

C

U

10

A

G

A

U

C

A

G

U

G

11

U

A

G

U

A

U

C

U

G

U

12

C

Samples:

sample_1: U2U6111 0.6-0.8 mM; potassium phosphate 20 mM

sample_2: U2U6111, [U-13C; U-15N]-Gua; [U-13C; U-15N]-Ura, 0.6-0.8 mM; potassium phosphate 20 mM

sample_3: U2U6111, [U-13C; U-15N]-Gua; [U-13C; U-15N]-Ura, 0.3-0.5 mM; potassium phosphate 20 mM; magnesium chloride 2 mM

sample_4: U2U6111 0.6-0.8 mM; potassium phosphate 20 mM; magnesium chloride 2 mM

sample_5: U2U6111, [U-13C; U-15N]-Gua; [U-13C; U-15N]-Ura, 0.3-0.5 mM; potassium phosphate 20 mM; magnesium chloride 2 mM; Pf1 phage 10 mg/ml

sample_conditions_1: ionic strength: 20 mM; pH: 7.0; pressure: 1 atm; temperature: 283 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-1H NOESY	sample_1	isotropic	sample_conditions_1
2D 1H-15N HMQC	sample_2	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_3	isotropic	sample_conditions_1
2D 1H-15N HMQC	sample_4	isotropic	sample_conditions_1
2D 1H-15N TROSY-HMQC	sample_2	isotropic	sample_conditions_1
2D 1H-15N TROSY-HMQC	sample_4	isotropic	sample_conditions_1
2D 1H-15N HMQC	sample_5	anisotropic	sample_conditions_1
2D 1H-15N TROSY-HMQC	sample_5	anisotropic	sample_conditions_1

Software:

SPARKY v3.114, Goddard - chemical shift assignment

TOPSPIN v2.1, Bruker Biospin - processing

MC-SYM v4.2.2, Parisien, Major - structure solution

X-PLOR NIH v2.21, Schwieters, Kuszewski, Tjandra and Clore - refinement

NMR spectrometers:

Bruker Avance 700 MHz
Bruker Avance 750 MHz