Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Solution Structure of the ScYLV P1-P2 Frameshifting 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 27 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 | 1yg4_A_A3_G4 | AAA | AA08 | 76 | 0.27 |
| 02 | 1yg4_A_G4_U5 | AAA | AA08 | 52 | 0.40 |
| 03 | 1yg4_A_U5_G6 | AAA | AA00 | 46 | 0.35 |
| 04 | 1yg4_A_G6_G7 | NAN | NANT | 0 | 0.74 |
| 05 | 1yg4_A_G7_CH8 | NAN | NANT | 0 | 0.70 |
| 06 | 1yg4_A_CH8_G9 | NAN | NANT | 0 | 0.76 |
| 07 | 1yg4_A_G9_C10 | NAN | NANT | 0 | 1.15 |
| 08 | 1yg4_A_C10_C11 | NAN | NANT | 0 | 0.48 |
| 09 | 1yg4_A_C11_G12 | AAA | AA04 | 48 | 0.45 |
| 10 | 1yg4_A_G12_A13 | NAN | NANT | 0 | 0.66 |
| 11 | 1yg4_A_A13_C14 | NAN | NANT | 0 | 1.87 |
| 12 | 1yg4_A_C14_C15 | AAA | AA04 | 50 | 0.46 |
| 13 | 1yg4_A_C15_A16 | NAN | NANT | 0 | 0.36 |
| 14 | 1yg4_A_A16_C17 | AAA | AA04 | 70 | 0.42 |
| 15 | 1yg4_A_C17_U18 | NAN | NANT | 0 | 0.38 |
| 16 | 1yg4_A_U18_U19 | NAN | NANT | 0 | 0.92 |
| 17 | 1yg4_A_U19_A20 | ZZZ | ZZ02 | 23 | 0.43 |
| 18 | 1yg4_A_A20_A21 | NAN | NANT | 0 | 0.82 |
| 19 | 1yg4_A_A21_A22 | NAN | NANT | 0 | 0.95 |
| 20 | 1yg4_A_A22_A23 | AAA | AA00 | 17 | 0.59 |
| 21 | 1yg4_A_A23_A24 | NAN | NANT | 0 | 0.80 |
| 22 | 1yg4_A_A24_C25 | NAN | NANT | 0 | 0.95 |
| 23 | 1yg4_A_C25_A26 | NAN | NANT | 0 | 1.72 |
| 24 | 1yg4_A_A26_C27 | AAA | AA00 | 4 | 0.56 |
| 25 | 1yg4_A_C27_C28 | AAA | AA04 | 25 | 0.61 |
| 26 | 1yg4_A_C28_G29 | AAA | AA08 | 60 | 0.37 |
| 27 | 1yg4_A_G29_G30 | AAA | AA08 | 39 | 0.47 |
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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