Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
The structure of RNA aptamer for HIV Tat complexed with two argininamide molecules
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 33 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 | 1nbk_A_G1_G2 | NAN | NANT | 0 | 0.65 |
| 02 | 1nbk_A_G2_G3 | AAw | AA01 | 9 | 0.38 |
| 03 | 1nbk_A_G3_A4 | AAA | AA04 | 52 | 0.27 |
| 04 | 1nbk_A_A4_G5 | AAA | AA00 | 31 | 0.28 |
| 05 | 1nbk_A_G5_C6 | AAw | AA01 | 45 | 0.41 |
| 06 | 1nbk_A_C6_U7 | NAN | NANT | 0 | 1.18 |
| 07 | 1nbk_A_U7_U8 | NAN | NANT | 0 | 2.17 |
| 08 | 1nbk_A_U8_G9 | NAN | NANT | 0 | 1.82 |
| 09 | 1nbk_A_G9_A10 | NAN | NANT | 0 | 0.54 |
| 10 | 1nbk_A_A10_U11 | AAA | AA00 | 21 | 0.39 |
| 11 | 1nbk_A_U11_C12 | NAN | NANT | 0 | 0.63 |
| 12 | 1nbk_A_C12_C13 | NAN | NANT | 0 | 0.83 |
| 13 | 1nbk_A_C13_C14 | AAA | AA08 | 42 | 0.40 |
| 14 | 1nbk_A_C14_G15 | AAw | AA01 | 45 | 0.52 |
| 15 | 1nbk_A_G15_G16 | NAN | NANT | 0 | 0.81 |
| 16 | 1nbk_A_G16_A17 | NAN | NANT | 0 | 0.73 |
| 17 | 1nbk_A_A17_A18 | NAN | NANT | 0 | 0.93 |
| 18 | 1nbk_A_A18_A19 | AAA | AA04 | 26 | 0.37 |
| 19 | 1nbk_A_A19_C20 | NAN | NANT | 0 | 0.92 |
| 20 | 1nbk_A_C20_G21 | AAA | AA03 | 30 | 0.25 |
| 21 | 1nbk_A_G21_G22 | AAw | AA01 | 14 | 0.36 |
| 22 | 1nbk_A_G22_U23 | NAN | NANT | 0 | 1.09 |
| 23 | 1nbk_A_U23_C24 | NAN | NANT | 0 | 1.87 |
| 24 | 1nbk_A_C24_G25 | NAN | NANT | 0 | 1.86 |
| 25 | 1nbk_A_G25_A26 | AAA | AA04 | 43 | 0.39 |
| 26 | 1nbk_A_A26_U27 | AAA | AA00 | 15 | 0.48 |
| 27 | 1nbk_A_U27_C28 | AAw | AA11 | 39 | 0.43 |
| 28 | 1nbk_A_C28_G29 | NAN | NANT | 0 | 0.47 |
| 29 | 1nbk_A_G29_C30 | AAA | AA08 | 39 | 0.32 |
| 30 | 1nbk_A_C30_U31 | AAw | AA06 | 26 | 0.45 |
| 31 | 1nbk_A_U31_C32 | AAA | AA00 | 10 | 0.29 |
| 32 | 1nbk_A_C32_C33 | AAw | AA01 | 51 | 0.33 |
| 33 | 1nbk_A_C33_C34 | NAN | NANT | 0 | 0.75 |
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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| Color by conformation group (pyramids) | |
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