Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Ternary complex of T4 phage BGT with UDP and a 13 mer DNA duplex
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 44 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 | 1m5r_C_DG1_DA2 | NAN | NANT | 0 | 2.30 |
| 02 | 1m5r_C_DA2_DT3 | BBB | BB00 | 80 | 0.24 |
| 03 | 1m5r_C_DT3_DA4 | BBB | BB00 | 95 | 0.16 |
| 04 | 1m5r_C_DA4_DC5 | BBB | BB00 | 92 | 0.14 |
| 05 | 1m5r_C_DC5_DT6 | BBB | BB00 | 87 | 0.27 |
| 06 | 1m5r_C_DA8_DG9 | BBB | BB00 | 72 | 0.25 |
| 07 | 1m5r_C_DG9_DA10 | BBB | BB00 | 94 | 0.19 |
| 08 | 1m5r_C_DA10_DT11 | BBB | BB00 | 96 | 0.15 |
| 09 | 1m5r_C_DT11_DA12 | BBB | BB00 | 90 | 0.21 |
| 10 | 1m5r_C_DA12_DG13 | BBB | BB00 | 83 | 0.10 |
| 11 | 1m5r_E_DC14_DT15 | BBB | BB00 | 84 | 0.24 |
| 12 | 1m5r_E_DT15_DA16 | BBB | BB00 | 89 | 0.17 |
| 13 | 1m5r_E_DA16_DT17 | BBB | BB00 | 90 | 0.21 |
| 14 | 1m5r_E_DT17_DC18 | BBB | BB00 | 87 | 0.23 |
| 15 | 1m5r_E_DC18_DT19 | BBB | BB00 | 96 | 0.13 |
| 16 | 1m5r_E_DT19_DG20 | BBB | BB00 | 85 | 0.21 |
| 17 | 1m5r_E_DG20_DA21 | NAN | NANT | 0 | 0.50 |
| 18 | 1m5r_E_DA21_DG22 | B12 | BB04 | 93 | 0.21 |
| 19 | 1m5r_E_DG22_DT23 | BBB | BB00 | 93 | 0.16 |
| 20 | 1m5r_E_DT23_DA24 | BBB | BB00 | 83 | 0.23 |
| 21 | 1m5r_E_DA24_DT25 | BBw | BB02 | 74 | 0.28 |
| 22 | 1m5r_E_DT25_DC26 | NAN | NANT | 0 | 1.42 |
| 23 | 1m5r_D_DG1_DA2 | BBB | BB00 | 92 | 0.18 |
| 24 | 1m5r_D_DA2_DT3 | BBB | BB00 | 91 | 0.17 |
| 25 | 1m5r_D_DT3_DA4 | BBB | BB00 | 91 | 0.21 |
| 26 | 1m5r_D_DA4_DC5 | BBB | BB00 | 95 | 0.14 |
| 27 | 1m5r_D_DC5_DT6 | BBB | BB00 | 92 | 0.20 |
| 28 | 1m5r_D_DA8_DG9 | B12 | BB04 | 91 | 0.14 |
| 29 | 1m5r_D_DG9_DA10 | BBB | BB00 | 92 | 0.17 |
| 30 | 1m5r_D_DA10_DT11 | BBB | BB00 | 98 | 0.13 |
| 31 | 1m5r_D_DT11_DA12 | B12 | BB04 | 85 | 0.20 |
| 32 | 1m5r_D_DA12_DG13 | BBB | BB00 | 80 | 0.17 |
| 33 | 1m5r_F_DC14_DT15 | BBB | BB00 | 86 | 0.23 |
| 34 | 1m5r_F_DT15_DA16 | BBB | BB00 | 94 | 0.14 |
| 35 | 1m5r_F_DA16_DT17 | BBB | BB00 | 93 | 0.16 |
| 36 | 1m5r_F_DT17_DC18 | BBB | BB00 | 84 | 0.23 |
| 37 | 1m5r_F_DC18_DT19 | BBB | BB00 | 86 | 0.20 |
| 38 | 1m5r_F_DT19_DG20 | BBB | BB00 | 88 | 0.14 |
| 39 | 1m5r_F_DG20_DA21 | NAN | NANT | 0 | 0.47 |
| 40 | 1m5r_F_DA21_DG22 | B12 | BB04 | 92 | 0.15 |
| 41 | 1m5r_F_DG22_DT23 | BBB | BB00 | 90 | 0.21 |
| 42 | 1m5r_F_DT23_DA24 | BBw | BB02 | 93 | 0.10 |
| 43 | 1m5r_F_DA24_DT25 | miB | BB13 | 89 | 0.25 |
| 44 | 1m5r_F_DT25_DC26 | BBw | BB16 | 69 | 0.24 |
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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