Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Structure of EndoMS-dsDNA1'' complex
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 56 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 | 5gkg_C_DC.A1_DG.A2 | A-B | AB05 | 46 | 0.35 |
| 02 | 5gkg_C_DC.B1_DG.B2 | BBB | BB00 | 64 | 0.21 |
| 03 | 5gkg_C_DG.A2_DC.A3 | BBB | BB00 | 61 | 0.18 |
| 04 | 5gkg_C_DG.B2_DC.B3 | BBB | BB00 | 83 | 0.20 |
| 05 | 5gkg_C_DC.A3_DT.A4 | B-A | BA01 | 51 | 0.27 |
| 06 | 5gkg_C_DC.B3_DT.B4 | BBB | BB01 | 38 | 0.23 |
| 07 | 5gkg_C_DT.A4_DA.A5 | A-B | AB01 | 45 | 0.36 |
| 08 | 5gkg_C_DT.B4_DA.B5 | BBB | BB01 | 59 | 0.24 |
| 09 | 5gkg_C_DA.A5_DC.A6 | BBB | BB00 | 60 | 0.45 |
| 10 | 5gkg_C_DA.B5_DC.B6 | BBB | BB00 | 71 | 0.39 |
| 11 | 5gkg_C_DC.A6_DA.A7 | BBB | BB00 | 61 | 0.28 |
| 12 | 5gkg_C_DC.B6_DA.B7 | BBB | BB00 | 62 | 0.32 |
| 13 | 5gkg_C_DA.A7_DG.A8 | NAN | NANT | 0 | 0.57 |
| 14 | 5gkg_C_DA.B7_DG.B8 | NAN | NANT | 0 | 0.61 |
| 15 | 5gkg_C_DG.A8_DG.A9 | NAN | NANT | 0 | 0.57 |
| 16 | 5gkg_C_DG.B8_DG.B9 | NAN | NANT | 0 | 0.53 |
| 17 | 5gkg_C_DG.A9_DT.A10 | NAN | NANT | 0 | 0.45 |
| 18 | 5gkg_C_DG.B9_DT.B10 | NAN | NANT | 0 | 0.47 |
| 19 | 5gkg_C_DT.A10_DC.A11 | BBB | BB00 | 66 | 0.26 |
| 20 | 5gkg_C_DT.B10_DC.B11 | BBB | BB01 | 78 | 0.24 |
| 21 | 5gkg_C_DC.A11_DG.A12 | BBB | BB00 | 70 | 0.28 |
| 22 | 5gkg_C_DC.B11_DG.B12 | BBB | BB00 | 53 | 0.27 |
| 23 | 5gkg_C_DG.A12_DT.A13 | BBB | BB00 | 10 | 0.25 |
| 24 | 5gkg_C_DG.B12_DT.B13 | miB | BB10 | 68 | 0.25 |
| 25 | 5gkg_C_DT.A13_DC.A14 | BBB | BB00 | 57 | 0.25 |
| 26 | 5gkg_C_DT.B13_DC.B14 | B12 | BB04 | 30 | 0.20 |
| 27 | 5gkg_C_DC.A14_DC.A15 | B-A | BA08 | 87 | 0.20 |
| 28 | 5gkg_C_DC.B14_DC.B15 | BBB | BB01 | 26 | 0.35 |
| 29 | 5gkg_D_DG.A1_DG.A2 | B12 | BB04 | 73 | 0.25 |
| 30 | 5gkg_D_DG.B1_DG.B2 | NAN | NANT | 0 | 0.68 |
| 31 | 5gkg_D_DG.A2_DA.A3 | BBB | BB00 | 85 | 0.14 |
| 32 | 5gkg_D_DG.B2_DA.B3 | BBB | BB00 | 62 | 0.16 |
| 33 | 5gkg_D_DA.A3_DC.A4 | B-A | BA05 | 42 | 0.18 |
| 34 | 5gkg_D_DA.B3_DC.B4 | B-A | BA01 | 29 | 0.25 |
| 35 | 5gkg_D_DC.A4_DG.A5 | BBB | BB01 | 59 | 0.30 |
| 36 | 5gkg_D_DC.B4_DG.B5 | BBB | BB01 | 45 | 0.28 |
| 37 | 5gkg_D_DG.A5_DA.A6 | BBB | BB00 | 54 | 0.50 |
| 38 | 5gkg_D_DG.B5_DA.B6 | B12 | BB04 | 71 | 0.26 |
| 39 | 5gkg_D_DA.A6_DC.A7 | BBB | BB00 | 81 | 0.22 |
| 40 | 5gkg_D_DA.B6_DC.B7 | BBB | BB00 | 66 | 0.25 |
| 41 | 5gkg_D_DC.A7_DG.A8 | NAN | NANT | 0 | 0.62 |
| 42 | 5gkg_D_DC.B7_DG.B8 | NAN | NANT | 0 | 0.63 |
| 43 | 5gkg_D_DG.A8_DT.A9 | NAN | NANT | 0 | 0.48 |
| 44 | 5gkg_D_DG.B8_DT.B9 | NAN | NANT | 0 | 0.43 |
| 45 | 5gkg_D_DT.A9_DG.A10 | NAN | NANT | 0 | 0.44 |
| 46 | 5gkg_D_DT.B9_DG.B10 | A-B | AB05 | 31 | 0.43 |
| 47 | 5gkg_D_DG.A10_DT.A11 | BBB | BB00 | 82 | 0.21 |
| 48 | 5gkg_D_DG.B10_DT.B11 | BBB | BB00 | 59 | 0.25 |
| 49 | 5gkg_D_DT.A11_DA.A12 | BBB | BB00 | 50 | 0.20 |
| 50 | 5gkg_D_DT.B11_DA.B12 | BBB | BB00 | 32 | 0.30 |
| 51 | 5gkg_D_DA.A12_DG.A13 | BBB | BB00 | 88 | 0.20 |
| 52 | 5gkg_D_DA.B12_DG.B13 | BBB | BB00 | 70 | 0.26 |
| 53 | 5gkg_D_DG.A13_DC.A14 | BBB | BB00 | 62 | 0.26 |
| 54 | 5gkg_D_DG.B13_DC.B14 | NAN | NANT | 0 | 0.42 |
| 55 | 5gkg_D_DC.A14_DG.A15 | BBB | BB00 | 73 | 0.29 |
| 56 | 5gkg_D_DC.B14_DG.B15 | NAN | NANT | 0 | 0.40 |
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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| group | |||||||||
| visible |
| Color by NtC (balls) |
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| A | ||||
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| A-B | ||||
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| B-A | ||||
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| B | ||||
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| IC | ||||
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| OPN | ||||
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| Z | ||||
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| N | ||||
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