Conformers:
ABBIImiBZICOPNSYNN
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Crystal structure of VirB core domain (Se-Met derivative) complexed with the cis-acting site (5-BRU modifications) upstream icsb promoter
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 50 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 | 3vwb_C_DA1_DA2 | BBB | BB01 | 60 | 0.18 |
| 02 | 3vwb_C_DA2_DA3 | BBB | BB01 | 59 | 0.22 |
| 03 | 3vwb_C_DA3_DC4 | NAN | NANT | 0 | 0.49 |
| 04 | 3vwb_C_DC4_BRU5 | NAN | NANT | 0 | 0.68 |
| 05 | 3vwb_C_BRU5_DC6 | NAN | NANT | 0 | 0.78 |
| 06 | 3vwb_C_DC6_DG7 | NAN | NANT | 0 | 0.69 |
| 07 | 3vwb_C_DG7_DT8 | NAN | NANT | 0 | 0.46 |
| 08 | 3vwb_C_DT8_DT9 | NAN | NANT | 0 | 0.52 |
| 09 | 3vwb_C_DT9_DT10 | NAN | NANT | 0 | 0.57 |
| 10 | 3vwb_C_DT10_DC11 | NAN | NANT | 0 | 0.67 |
| 11 | 3vwb_C_DC11_DA12 | BBB | BB00 | 57 | 0.31 |
| 12 | 3vwb_C_DA12_DT13 | BBB | BB00 | 59 | 0.20 |
| 13 | 3vwb_C_DT13_DC14 | BBB | BB00 | 65 | 0.21 |
| 14 | 3vwb_C_DC14_DA15 | B12 | BB04 | 62 | 0.30 |
| 15 | 3vwb_C_DA15_DT16 | BBw | BB02 | 66 | 0.18 |
| 16 | 3vwb_C_DT16_DG17 | BBB | BB00 | 79 | 0.35 |
| 17 | 3vwb_C_DG17_DA18 | BB2 | BB07 | 69 | 0.13 |
| 18 | 3vwb_C_DA18_DA19 | BBB | BB00 | 78 | 0.15 |
| 19 | 3vwb_C_DA19_DA20 | BBB | BB00 | 81 | 0.26 |
| 20 | 3vwb_C_DA20_BRU21 | NAN | NANT | 0 | 0.50 |
| 21 | 3vwb_C_BRU21_DC22 | NAN | NANT | 0 | 0.48 |
| 22 | 3vwb_C_DC22_DC23 | BBB | BB00 | 72 | 0.25 |
| 23 | 3vwb_C_DC23_DC24 | BBB | BB00 | 83 | 0.18 |
| 24 | 3vwb_C_DC24_DA25 | BB2 | BB07 | 75 | 0.16 |
| 25 | 3vwb_C_DA25_DC26 | NAN | NANT | 0 | 0.40 |
| 26 | 3vwb_B_DT1_DT2 | NAN | NANT | 0 | 0.63 |
| 27 | 3vwb_B_DT2_DT3 | NAN | NANT | 0 | 0.52 |
| 28 | 3vwb_B_DT3_DG4 | NAN | NANT | 0 | 0.58 |
| 29 | 3vwb_B_DG4_DT5 | NAN | NANT | 0 | 0.50 |
| 30 | 3vwb_B_DT5_DG6 | B-A | BA17 | 55 | 0.47 |
| 31 | 3vwb_B_DG6_DG7 | BBB | BB00 | 42 | 0.24 |
| 32 | 3vwb_B_DG7_DG8 | BB2 | BB07 | 81 | 0.18 |
| 33 | 3vwb_B_DG8_DA9 | BBB | BB00 | 86 | 0.20 |
| 34 | 3vwb_B_DA9_DT10 | BBB | BB01 | 90 | 0.16 |
| 35 | 3vwb_B_DT10_DT11 | BBB | BB01 | 84 | 0.21 |
| 36 | 3vwb_B_DT11_DT12 | BBB | BB00 | 83 | 0.19 |
| 37 | 3vwb_B_DT12_DC13 | BBB | BB00 | 38 | 0.25 |
| 38 | 3vwb_B_DC13_DA14 | BBB | BB00 | 45 | 0.36 |
| 39 | 3vwb_B_DA14_DT15 | BBB | BB01 | 77 | 0.20 |
| 40 | 3vwb_B_DT15_DG16 | BBB | BB00 | 39 | 0.36 |
| 41 | 3vwb_B_DG16_DA17 | NAN | NANT | 0 | 0.36 |
| 42 | 3vwb_B_DA17_DT18 | BBB | BB01 | 66 | 0.28 |
| 43 | 3vwb_B_DT18_DG19 | BBB | BB00 | 42 | 0.22 |
| 44 | 3vwb_B_DG19_DA20 | B12 | BB04 | 63 | 0.21 |
| 45 | 3vwb_B_DA20_DA21 | miB | BB13 | 40 | 0.32 |
| 46 | 3vwb_B_DA21_DA22 | BBB | BB00 | 28 | 0.38 |
| 47 | 3vwb_B_DA22_DC23 | B-A | BA09 | 17 | 0.34 |
| 48 | 3vwb_B_DC23_DG24 | A-B | AB05 | 26 | 0.56 |
| 49 | 3vwb_B_DG24_DA25 | BBB | BB00 | 67 | 0.32 |
| 50 | 3vwb_B_DA25_DG26 | NAN | NANT | 0 | 0.67 |
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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