Conformers:
ABBIImiBZICOPNSYNN
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Crystal structure of the E. coli pseudouridine synthase TruB bound to a T stem-loop RNA
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 19 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 | 1k8w_B_G401_G402 | SYN | AAS1 | 25 | 0.67 |
| 02 | 1k8w_B_G402_C403 | AAA | AA00 | 89 | 0.11 |
| 03 | 1k8w_B_C403_A404 | AAA | AA00 | 93 | 0.13 |
| 04 | 1k8w_B_A404_A405 | AAA | AA00 | 96 | 0.11 |
| 05 | 1k8w_B_A405_C406 | AAA | AA00 | 92 | 0.19 |
| 06 | 1k8w_B_C406_G407 | AAA | AA00 | 88 | 0.20 |
| 07 | 1k8w_B_G407_G408 | AAA | AA00 | 27 | 0.34 |
| 08 | 1k8w_B_G408_U409 | A-B | AB05 | 32 | 0.22 |
| 09 | 1k8w_B_C411_G412 | SYN | BB2S | 10 | 0.57 |
| 10 | 1k8w_B_G412_A413 | NAN | NANT | 0 | 0.97 |
| 11 | 1k8w_B_A413_U414 | NAN | NANT | 0 | 0.87 |
| 12 | 1k8w_B_U414_C415 | A-B | AB05 | 55 | 0.47 |
| 13 | 1k8w_B_C415_C416 | OPN | OP12 | 93 | 0.15 |
| 14 | 1k8w_B_C416_C417 | AAA | AA00 | 93 | 0.12 |
| 15 | 1k8w_B_C417_G418 | AAA | AA00 | 88 | 0.16 |
| 16 | 1k8w_B_G418_U419 | AAA | AA00 | 93 | 0.13 |
| 17 | 1k8w_B_U419_U420 | AAA | AA00 | 93 | 0.12 |
| 18 | 1k8w_B_U420_G421 | AAA | AA00 | 91 | 0.13 |
| 19 | 1k8w_B_G421_C422 | AAA | AA00 | 94 | 0.14 |
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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