Conformers:
ABBIImiBZICOPNSYNN
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Refined solution structure of the PEMV-1 mRNA pseudoknot, regularized average structure
Click a row in table or a step in viewer for analysis of results. Click column headers to sort data.
Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
Results of the assignment of 26 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.
Click a row in table or a step in viewer for analysis of results. Click column headers to sort data.
Define restraints for steps within Å cartesian RMSD, global sigma scaling factor or use per step sigma scaling.
| step number | Step name | CANA | NtC | confal | rmsd |
|---|---|---|---|---|---|
| 01 | 2rp1_A_U4_C5 | AAw | AA01 | 11 | 0.18 |
| 02 | 2rp1_A_C5_C6 | AAA | AA04 | 38 | 0.52 |
| 03 | 2rp1_A_C6_G7 | AAA | AA00 | 17 | 0.36 |
| 04 | 2rp1_A_G7_G8 | NAN | NANT | 0 | 0.34 |
| 05 | 2rp1_A_G8_U9 | AAu | AA12 | 40 | 0.51 |
| 06 | 2rp1_A_U9_CH10 | ZZZ | ZZ01 | 15 | 0.55 |
| 07 | 2rp1_A_CH10_G11 | NAN | NANT | 0 | 0.81 |
| 08 | 2rp1_A_G11_A12 | NAN | NANT | 0 | 0.95 |
| 09 | 2rp1_A_A12_C13 | AAw | AA01 | 9 | 0.46 |
| 10 | 2rp1_A_C13_U14 | NAN | NANT | 0 | 1.55 |
| 11 | 2rp1_A_U14_C15 | NAN | NANT | 0 | 0.53 |
| 12 | 2rp1_A_C15_C16 | NAN | NANT | 0 | 0.79 |
| 13 | 2rp1_A_C16_G17 | AAA | AA04 | 51 | 0.37 |
| 14 | 2rp1_A_G17_G18 | AAw | AA01 | 27 | 0.20 |
| 15 | 2rp1_A_G18_A19 | AAA | AA00 | 8 | 0.38 |
| 16 | 2rp1_A_A19_G20 | NAN | NANT | 0 | 1.50 |
| 17 | 2rp1_A_G20_A21 | NAN | NANT | 0 | 1.75 |
| 18 | 2rp1_A_A21_A22 | NAN | NANT | 0 | 1.48 |
| 19 | 2rp1_A_A22_A23 | NAN | NANT | 0 | 0.97 |
| 20 | 2rp1_A_A23_C24 | AAA | AA04 | 13 | 0.55 |
| 21 | 2rp1_A_C24_A25 | AAw | AA01 | 21 | 0.35 |
| 22 | 2rp1_A_A25_A26 | AAA | AA08 | 14 | 0.50 |
| 23 | 2rp1_A_A26_A27 | AAw | AA06 | 37 | 0.48 |
| 24 | 2rp1_A_A27_G28 | AAw | AA01 | 27 | 0.53 |
| 25 | 2rp1_A_G28_U29 | AAw | AA06 | 42 | 0.43 |
| 26 | 2rp1_A_U29_C30 | NAN | NANT | 0 | 0.54 |
Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
|
step: Table of conformers |
| δ1 | ε1 | ζ1 | α2 | β2 | γ2 | δ2 | χ1 | χ2 | μ | NN | CC | |
| step_torsions | ||||||||||||
| ntC_average | ||||||||||||
| Δ torsions | ||||||||||||
| torsion scores |
| comments | step confal = NaN cartesian RMSD = NaN Å pseudorotation: NA details: NA |
Similarity of step to class averages
Download
Results as csv or json file.Best NtC fitted to input structure.
Restraints
Restraints file for REFMAC (steps with RMSD <= 0.5Å)Commands file for MMB (steps with RMSD <= 0.5Å)
Restraints file for Phenix (steps with RMSD <= 0.5Å) [?]
Definitions
Average parameters (csv), esd values (csv), and Cartesian coordinates of conformers.Download the papers
Description of DNATCO server:Černý et al., Nucleic Acids Research, 44, W284 (2016).
Definition of conformers:
Schneider et al., Acta Cryst D, 74, 52-64 (2018).
Example of application:
Schneider et al., Genes, 8(10), 278, (2017).
Browse conformers
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