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

Crystal structure of Mus musculus (Mm) Endonuclease V in complex with a 23mer RNA oligo containing an inosine after a 15 min soak in 10 mM Mn2+

Results of the assignment of 26 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
016ozn_C_A.A11_U.A12AAAAA00680.38AA00
026ozn_C_U.A12_A13AAAAA08800.36AA08
036ozn_C_U.B12_A13AAAAA08790.37AA08
046ozn_C_A13_U14AAAAA08840.19AA08
056ozn_C_U14_G15AAAAA00510.14AA00
066ozn_C_G15_C16AAAAA00950.09AA00
076ozn_C_C16_A17AAAAA00940.13AA00
086ozn_C_A17_U18AAAAA00750.24AA00
096ozn_C_U18_G19AAAAA00800.17AA00
106ozn_C_G19_C20AAAAA00900.17AA00
116ozn_C_C20_A21AAAAA00890.18AA00
126ozn_C_A21_U22AAAAA00920.12AA00
136ozn_C_U22_U23AAAAA00660.32AA00
146ozn_D_A.A11_U.A12AAAAA00610.42AA00
156ozn_D_U.A12_A13AAAAA08890.30AA08
166ozn_D_U.B12_A13AAAAA08890.30AA08
176ozn_D_A13_U14AAAAA08860.19AA08
186ozn_D_U14_G15AAAAA00580.11AA00
196ozn_D_G15_C16AAAAA00950.09AA00
206ozn_D_C16_A17AAAAA00950.13AA00
216ozn_D_A17_U18AAAAA00750.25AA00
226ozn_D_U18_G19AAAAA00820.13AA00
236ozn_D_G19_C20AAAAA00920.11AA00
246ozn_D_C20_A21AAAAA00910.18AA00
256ozn_D_A21_U22AAAAA00930.09AA00
266ozn_D_U22_U23AAAAA08620.29AA08

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).

Show



Color by conformation group (pyramids)

group
visible

Color by NtC (balls)

A

A-B

B-A

B

IC

OPN

Z

N