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

©Jiří Černý & Bohdan Schneider

The Crystal Structure of an RNA/DNA Hybrid Reveals Novel Intermolecular Intercalation

Results of the assignment of 18 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.

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Click a row in table or a step in JSmol for analysis of results. Click column headers to sort data.
step numberStep nameCANANtCconfalrmsd
011jb8_A_C1_A2ICLIC01180.37IC01
021jb8_A_A2_A3B-ABA13720.31BA13
031jb8_A_A3_A4AAAAA00860.18AA00
041jb8_A_A4_G5AAAAA04420.50AA04
051jb8_A_G5_A6AAAAA00820.21AA00
061jb8_A_A6_A7AAAAA00940.19AA00
071jb8_A_A7_A8AAAAA00920.21AA00
081jb8_A_A8_A9AAAAA00950.12AA00
091jb8_A_A9_G10AAAAA00730.14AA00
101jb8_B_DC11_DT12AAAAA00680.24AA00
111jb8_B_DT12_DT13AAwAA01750.17AA01
121jb8_B_DT13_DT14AAAAA00560.25AA00
131jb8_B_DT14_DT15AAAAA00790.23AA00
141jb8_B_DT15_DC16AAAAA00940.15AA00
151jb8_B_DC16_DT17AAAAA00830.32AA00
161jb8_B_DT17_DT18AAAAA00930.18AA00
171jb8_B_DT18_DT19AAAAA00720.22AA00
181jb8_B_DT19_DG20NANNANT00.53IC01

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).

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