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

©Jiří Černý & Bohdan Schneider

Structure of the Hybrid RNA/DNA R-GCUUCGGC-D[BR]U in Presence of RH(NH3)6+++

Results of the assignment of 17 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
011iha_A_G1_C2AAAAA00840.19AA00
021iha_A_C2_U3AAAAA00800.20AA00
031iha_A_U3_U4AAuAA12880.22AA12
041iha_A_U4_C5AAAAA00830.17AA00
051iha_A_C5_G6AAAAA00720.27AA00
061iha_A_G6_G7AAAAA00780.26AA00
071iha_A_G7_C8AAAAA00860.25AA00
081iha_A_C8_BRU9NANNANT00.69OP29
091iha_B_G1_C2AAAAA00800.14AA00
101iha_B_C2_U3AAAAA00920.18AA00
111iha_B_U3_U4AAuAA12910.18AA12
121iha_B_U4_C5AAAAA00820.20AA00
131iha_B_C5_G6AAwAA01640.30AA01
141iha_B_G6_G7AAAAA08840.21AA08
151iha_B_G7_C8NANNANT00.30AA01
161iha_B_C8_BRU.A9NANNANT01.78AB02
171iha_B_C8_BRU.B9NANNANT01.85AB02

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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