Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
X-ray structure of the complex between human alpha thrombin and a thrombin binding aptamer variant (TBA-3L), which contains 1-beta-D-lactopyranosyl residue in the side chain of Thy3 at N3.
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 10 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 | 6z8v_A_DG1_DG2 | SYN | BBS1 | 96 | 0.17 |
| 02 | 6z8v_A_DT4_DG5 | NAN | NANT | 0 | 0.71 |
| 03 | 6z8v_A_DG5_DG6 | SYN | BBS1 | 77 | 0.20 |
| 04 | 6z8v_A_DG6_DT7 | miB | BB12 | 78 | 0.22 |
| 05 | 6z8v_A_DT7_DG8 | NAN | NANT | 0 | 0.97 |
| 06 | 6z8v_A_DG10_DG11 | SYN | BBS1 | 64 | 0.23 |
| 07 | 6z8v_A_DG11_DT12 | NAN | NANT | 0 | 0.83 |
| 08 | 6z8v_A_DT12_DT13 | ICL | IC02 | 47 | 0.57 |
| 09 | 6z8v_A_DT13_DG14 | NAN | NANT | 0 | 0.77 |
| 10 | 6z8v_A_DG14_DG15 | SYN | BBS1 | 77 | 0.16 |
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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