Conformers:
ABBIImiBZICOPNSYNN
Click the Summary/Torsions/Similar/... tabs for more details.
Structures of HIV-1 RT and RNA-DNA Complex Reveal a Unique RT Conformation and Substrate Interface
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 40 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 | 4b3q_D_DA3_DT4 | A-B | AB01 | 28 | 0.34 |
| 02 | 4b3q_D_DT4_DG5 | BBB | BB00 | 80 | 0.20 |
| 03 | 4b3q_D_DG5_DC6 | BBB | BB01 | 86 | 0.16 |
| 04 | 4b3q_D_DC6_DC7 | NAN | NANT | 0 | 0.55 |
| 05 | 4b3q_D_DC7_DT8 | AAA | AA00 | 91 | 0.23 |
| 06 | 4b3q_D_DT8_DA9 | AAA | AA04 | 84 | 0.17 |
| 07 | 4b3q_D_DA9_DT10 | AAA | AA00 | 60 | 0.20 |
| 08 | 4b3q_D_DT10_DA11 | AAw | AA01 | 73 | 0.33 |
| 09 | 4b3q_D_DA11_DG12 | AAA | AA08 | 76 | 0.25 |
| 10 | 4b3q_D_DG12_DT13 | AAA | AA00 | 86 | 0.18 |
| 11 | 4b3q_D_DT13_DT14 | NAN | NANT | 0 | 0.54 |
| 12 | 4b3q_D_DT14_DA15 | NAN | NANT | 0 | 0.48 |
| 13 | 4b3q_D_DA15_DT16 | B-A | BA05 | 16 | 0.20 |
| 14 | 4b3q_D_DT16_DT17 | AAA | AA00 | 44 | 0.38 |
| 15 | 4b3q_D_DT17_DG18 | AAA | AA00 | 85 | 0.22 |
| 16 | 4b3q_D_DG18_DT19 | AAA | AA00 | 90 | 0.19 |
| 17 | 4b3q_D_DT19_DG20 | AAA | AA00 | 90 | 0.20 |
| 18 | 4b3q_D_DG20_DG21 | AAw | AA10 | 69 | 0.20 |
| 19 | 4b3q_D_DG21_DC22 | AAA | AA08 | 85 | 0.18 |
| 20 | 4b3q_D_DC22_DC23 | AAA | AA00 | 44 | 0.31 |
| 21 | 4b3q_R_G6_G7 | AAA | AA00 | 82 | 0.16 |
| 22 | 4b3q_R_G7_C8 | AAA | AA00 | 89 | 0.16 |
| 23 | 4b3q_R_C8_C9 | AAA | AA00 | 71 | 0.28 |
| 24 | 4b3q_R_C9_A10 | AAA | AA00 | 94 | 0.16 |
| 25 | 4b3q_R_A10_C11 | AAA | AA00 | 81 | 0.17 |
| 26 | 4b3q_R_C11_A12 | AAw | AA10 | 49 | 0.35 |
| 27 | 4b3q_R_A12_A13 | AAA | AA08 | 59 | 0.36 |
| 28 | 4b3q_R_A13_U14 | AAA | AA04 | 87 | 0.18 |
| 29 | 4b3q_R_U14_A15 | AAA | AA04 | 77 | 0.29 |
| 30 | 4b3q_R_A15_A16 | AAA | AA04 | 81 | 0.24 |
| 31 | 4b3q_R_A16_C17 | AAA | AA00 | 71 | 0.18 |
| 32 | 4b3q_R_C17_U18 | NAN | NANT | 0 | 0.47 |
| 33 | 4b3q_R_U18_A19 | AAA | AA04 | 31 | 0.56 |
| 34 | 4b3q_R_A19_U20 | AAA | AA00 | 92 | 0.15 |
| 35 | 4b3q_R_U20_A21 | AAA | AA00 | 86 | 0.17 |
| 36 | 4b3q_R_A21_G22 | AAA | AA00 | 81 | 0.13 |
| 37 | 4b3q_R_G22_G23 | AAA | AA00 | 78 | 0.19 |
| 38 | 4b3q_R_G23_C24 | AAA | AA00 | 79 | 0.17 |
| 39 | 4b3q_R_C24_A25 | AAA | AA00 | 95 | 0.16 |
| 40 | 4b3q_R_A25_U26 | AAA | AA08 | 84 | 0.17 |
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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| 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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