Conformers:
ABBIImiBZICOPNSYNN
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Crystal structure of the periplasmic endonuclease Vvn complexed with octamer double stranded DNA
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 | 1oup_C_DG1_DC2 | BBB | BB00 | 9 | 0.51 |
| 02 | 1oup_C_DC2_DG3 | BBB | BB00 | 89 | 0.19 |
| 03 | 1oup_C_DG3_DA4 | BBB | BB00 | 86 | 0.21 |
| 04 | 1oup_C_DA4_DT5 | BBB | BB00 | 82 | 0.24 |
| 05 | 1oup_C_DT5_DC6 | BBB | BB00 | 88 | 0.21 |
| 06 | 1oup_C_DC6_DG7 | B12 | BB04 | 77 | 0.24 |
| 07 | 1oup_C_DG7_DC8 | BBB | BB00 | 83 | 0.17 |
| 08 | 1oup_D_DG9_DC10 | BBB | BB00 | 74 | 0.24 |
| 09 | 1oup_D_DC10_DG11 | BBB | BB00 | 91 | 0.15 |
| 10 | 1oup_D_DG11_DA12 | BBw | BB02 | 77 | 0.21 |
| 11 | 1oup_D_DA12_DT13 | BBB | BB00 | 56 | 0.46 |
| 12 | 1oup_D_DT13_DC14 | BBB | BB00 | 81 | 0.25 |
| 13 | 1oup_D_DC14_DG15 | B12 | BB04 | 87 | 0.29 |
| 14 | 1oup_D_DG15_DC16 | BBw | BB02 | 31 | 0.42 |
| 15 | 1oup_E_DG1_DC2 | NAN | NANT | 0 | 0.64 |
| 16 | 1oup_E_DC2_DG3 | BBB | BB00 | 81 | 0.29 |
| 17 | 1oup_E_DG3_DA4 | BBB | BB00 | 42 | 0.34 |
| 18 | 1oup_E_DA4_DT5 | BBB | BB00 | 87 | 0.21 |
| 19 | 1oup_E_DT5_DC6 | NAN | NANT | 0 | 0.53 |
| 20 | 1oup_G_DG7_DC8 | NAN | NANT | 0 | 0.59 |
| 21 | 1oup_F_DG9_DC10 | BBB | BB00 | 85 | 0.17 |
| 22 | 1oup_F_DC10_DG11 | BBB | BB00 | 71 | 0.30 |
| 23 | 1oup_F_DG11_DA12 | NAN | NANT | 0 | 0.47 |
| 24 | 1oup_F_DA12_DT13 | NAN | NANT | 0 | 0.58 |
| 25 | 1oup_F_DT13_DC14 | BBB | BB00 | 83 | 0.20 |
| 26 | 1oup_F_DC14_DG15 | BBB | BB00 | 87 | 0.30 |
| 27 | 1oup_F_DG15_DC16 | BBw | BB02 | 36 | 0.35 |
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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