RNA-Puzzles

Description

The crystallized sequence was slightly different (an apical loop was replaced by a GAAA loop) but it was not mentioned to protect the crystallographers.

RNA sequence (5' to 3')

CUCUGGAGAGAACCGUUUAAUCGGUCGCCGAAGGAGCAAGCUCUGCGCAUAUGC AGAGUGAAACUCUCAGGCAAAAGGACAGAG

Experimental structure(s)

PFN4XIX5uEbNTwGRmGoqANHPaDgJ9apR-solutionPZ3.pdb aHsEnJou7w9pWY3IxYx966hdjqF8rxGL-solutionPZ3_1.pdb

References

L. Huang, A. Serganov and D.J. Patel (2010). Structural Insights into Ligand Recognition by a Sensing Domain of the Cooperative Glycine Riboswitch. Mol. Cell. 40: 774-786.

PDB ID:

3owz

Opening date:

19 Oct 2020, 23:24

Closing date (Human category):

19 Oct 2020, 23:24

#	Group (User)	Model(s)	Category	Clashscore	DI	INF all	INF nwc	INF stacking	INF wc	MCQ	P-Value	RMSD
1	Chen Group (Chen )	1	Human	0.000	9.819	0.737	0.000	0.731	0.857	23.790	0.000	7.241
2	Dokholyan Group (Dokholyan )	2	Human	32.380	15.892	0.721	0.000	0.707	0.857	21.370	0.039	11.460
3	Das Group (Das )	5	Human	1.100	16.394	0.730	0.408	0.706	0.898	18.710	0.069	11.965
4	Bujnicki Group (Bujnicki )	1	Human	9.200	17.382	0.701	0.000	0.697	0.834	24.060	0.087	12.186
5	Das Group (Das )	2	Human	0.740	16.428	0.743	0.463	0.720	0.881	20.690	0.088	12.199
6	Major Group (Major )	2	Human	76.950	23.118	0.593	0.000	0.605	0.681	40.090	0.303	13.701
7	Bujnicki Group (Bujnicki )	2	Human	3.310	22.219	0.633	0.000	0.602	0.834	21.300	0.375	14.057
8	Das Group (Das )	1	Human	0.000	21.211	0.730	0.500	0.701	0.864	20.560	0.681	15.481
9	Dokholyan Group (Dokholyan )	1	Human	32.010	23.287	0.684	0.000	0.657	0.917	21.690	0.763	15.920
10	Das Group (Das )	3	Human	1.110	23.124	0.733	0.463	0.706	0.881	20.360	0.901	16.954
11	Das Group (Das )	4	Human	1.840	25.907	0.706	0.401	0.682	0.864	21.640	0.979	18.298
12	Major Group (Major )	1	Human	60.040	44.277	0.519	0.000	0.592	0.421	40.400	1.000	22.987

Group (User)

Model(s)

Category

Clashscore

INF all

INF nwc

INF stacking

INF wc

MCQ

P-Value

RMSD

Details

Chen Group (Chen )

Human

0.000

9.819

0.737

0.000

0.731

0.857

23.790

0.000

7.241

Dokholyan Group (Dokholyan )

Human

32.380

15.892

0.721

0.000

0.707

0.857

21.370

0.039

11.460

Das Group (Das )

Human

1.100

16.394

0.730

0.408

0.706

0.898

18.710

0.069

11.965

Bujnicki Group (Bujnicki )

Human

9.200

17.382

0.701

0.000

0.697

0.834

24.060

0.087

12.186

Das Group (Das )

Human

0.740

16.428

0.743

0.463

0.720

0.881

20.690

0.088

12.199

Major Group (Major )

Human

76.950

23.118

0.593

0.000

0.605

0.681

40.090

0.303

13.701

Bujnicki Group (Bujnicki )

Human

3.310

22.219

0.633

0.000

0.602

0.834

21.300

0.375

14.057

Das Group (Das )

Human

0.000

21.211

0.730

0.500

0.701

0.864

20.560

0.681

15.481

Dokholyan Group (Dokholyan )

Human

32.010

23.287

0.684

0.000

0.657

0.917

21.690

0.763

15.920

Das Group (Das )

Human

1.110

23.124

0.733

0.463

0.706

0.881

20.360

0.901

16.954

Das Group (Das )

Human

1.840

25.907

0.706

0.401

0.682

0.864

21.640

0.979

18.298

Major Group (Major )

Human

60.040

44.277

0.519

0.000

0.592

0.421

40.400

1.000

22.987

Metric	Webserver category	Human category
Clashscore	-	-	2.575	18.223
DI	-	-	21.715	21.588
INF all	-	-	0.714	0.686
INF nwc	-	-	0.000	0.186
INF stacking	-	-	0.699	0.676
INF wc	-	-	0.861	0.816
MCQ	-	-	21.505	24.555
P-Value	-	-	0.339	0.440
RMSD	-	-	13.879	14.371

Metric

Webserver category

Human category

Median

Mean

Median

Mean

Clashscore

2.575

18.223

21.715

21.588

INF all

0.714

0.686

INF nwc

0.000

0.186

INF stacking

0.699

0.676

INF wc

0.861

0.816

MCQ

21.505

24.555

P-Value

0.339

0.440

RMSD

13.879

14.371

Puzzle PZ3