Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
CRYSTAL STRUCTURE OF AN RNA PSEUDOKNOT FROM BEET WESTERN YELLOW VIRUS INVOLVED IN RIBOSOMAL FRAMESHIFTING
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 31 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 | 437d_A_GTP1_G2 | OPN | OP01 | 14 | 0.68 |
| 02 | 437d_A_G2_C3 | AAA | AA00 | 50 | 0.28 |
| 03 | 437d_A_C3_G4 | AAA | AA00 | 86 | 0.21 |
| 04 | 437d_A_G4_C5 | AAA | AA00 | 66 | 0.19 |
| 05 | 437d_A_C5_G6 | AAA | AA00 | 80 | 0.10 |
| 06 | 437d_A_G6_G7 | AAA | AA00 | 76 | 0.23 |
| 07 | 437d_A_G7_C8 | AAw | AA01 | 44 | 0.42 |
| 08 | 437d_A_C8_A9 | OPN | OP05 | 39 | 0.37 |
| 09 | 437d_A_A9_C10 | AAA | AA08 | 17 | 0.57 |
| 10 | 437d_A_C10_C11 | AAA | AA00 | 86 | 0.18 |
| 11 | 437d_A_C11_G.A12 | AAA | AA00 | 88 | 0.20 |
| 12 | 437d_A_C11_G.B12 | AAA | AA00 | 89 | 0.18 |
| 13 | 437d_A_G.A12_U.A13 | NAN | NANT | 0 | 1.72 |
| 14 | 437d_A_G.B12_U.B13 | NAN | NANT | 0 | 1.03 |
| 15 | 437d_A_U.A13_C.A14 | NAN | NANT | 0 | 0.74 |
| 16 | 437d_A_U.B13_C.B14 | NAN | NANT | 0 | 0.96 |
| 17 | 437d_A_C.A14_C15 | AAA | AA00 | 83 | 0.15 |
| 18 | 437d_A_C.B14_C15 | AAA | AA00 | 80 | 0.14 |
| 19 | 437d_A_C15_G16 | AAA | AA00 | 92 | 0.16 |
| 20 | 437d_A_G16_C17 | AAw | AA01 | 90 | 0.14 |
| 21 | 437d_A_C17_G18 | A-B | AB05 | 46 | 0.32 |
| 22 | 437d_A_G18_G19 | NAN | NANT | 0 | 2.04 |
| 23 | 437d_A_G19_A20 | NAN | NANT | 0 | 0.98 |
| 24 | 437d_A_A20_A21 | OPN | OP06 | 24 | 0.49 |
| 25 | 437d_A_A21_C22 | AAA | AA00 | 69 | 0.18 |
| 26 | 437d_A_C22_A23 | AAw | AA01 | 64 | 0.36 |
| 27 | 437d_A_A23_A24 | AAA | AA00 | 64 | 0.31 |
| 28 | 437d_A_A24_A25 | NAN | NANT | 0 | 0.73 |
| 29 | 437d_A_A25_C26 | AAA | AA00 | 89 | 0.20 |
| 30 | 437d_A_C26_G27 | AAA | AA00 | 73 | 0.17 |
| 31 | 437d_A_G27_G28 | AAw | AA01 | 83 | 0.15 |
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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