Click the Summary/Torsions/Similar/... tabs for more details.
Center view on step or molecule.
Show reference and contacts model altloc

Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.

©Jiří Černý & Bohdan Schneider

SOLUTION STRUCTURE OF A DNA DODECAMER CONTAINING THE ANTI-NEOPLASTIC AGENT ARABINOSYLCYTOSINE: COMBINED USE OF NMR, RESTRAINED MOLECULAR DYNAMICS AND FULL RELAXATION MATRIX REFINEMENT

Results of the assignment of 22 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.

Your browser does not support the HTML5 canvas tag.
Your browser does not support the HTML5 canvas tag.
Click a row in table or a step in JSmol for analysis of results. Click column headers to sort data.
step numberStep nameCANANtCconfalrmsd
01170d_A_DC1_DG2A-BAB03370.49AB03
02170d_A_DG2_DC3BBBBB00420.27BB00
03170d_A_DC3_DG4BBBBB00470.34BB00
04170d_A_DG4_DA5BBBBB00610.36BB00
05170d_A_DA5_DA6BBBBB00620.39BB00
06170d_A_DA6_DT7BBBBB00760.20BB00
07170d_A_DT7_DT8BBBBB00540.26BB00
08170d_A_DT8_CAR9B-ABA05100.33BA05
09170d_A_CAR9_DG10A-BAB01380.25AB01
10170d_A_DG10_DC11BBBBB00390.29BB00
11170d_A_DC11_DG12NANNANT00.65AB03
12170d_B_DC13_DG14A-BAB03370.49AB03
13170d_B_DG14_DC15BBBBB00440.27BB00
14170d_B_DC15_DG16BBBBB00480.34BB00
15170d_B_DG16_DA17BBBBB00610.36BB00
16170d_B_DA17_DA18BBBBB00620.39BB00
17170d_B_DA18_DT19BBBBB00760.20BB00
18170d_B_DT19_DT20BBBBB00550.26BB00
19170d_B_DT20_CAR21B-ABA05110.33BA05
20170d_B_CAR21_DG22A-BAB01380.25AB01
21170d_B_DG22_DC23BBBBB00400.29BB00
22170d_B_DC23_DG24NANNANT00.65AB03

Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
Definition of torsion angles
step:
Table of conformers

δ1ε1ζ1α2β2γ2δ2χ1χ2μNNCC
step_torsions
ntC_average
Δ torsions
torsion scores

commentsstep confal = NaN
cartesian RMSD = NaN Å
pseudorotation: NA
details: NA

Similarity of step to class averages

Download

Results as csv or json file.
Restraints file for Phenix (steps with RMSD <= 0.5Å)
Restraints file for REFMAC (steps with RMSD <= 0.5Å)
Commands file for MMB (steps with RMSD <= 0.5Å)
Best NtC fitted to input structure.

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

Return up to random steps in PDB structures ( include large structures )

Show



Color by conformation group (pyramids)

group
visible

Color by NtC (balls)

A

A-B

B-A

B

IC

OPN

Z

N