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Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.
DNA-protein crosslink between E. coli YedK and ssDNA containing an abasic site

Results of the assignment of 8 detected steps in 1 model(s), can be also downloaded as csv 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
16nua_C_DG1_DT2OPNOP11280.45OP11
26nua_C_DT2_DC3AAAAA02730.46AA02
36nua_C_DG5_DG6BB2BB07440.37BB07
46nua_C_DG6_DA7BBBBB00610.41BB00
56nua_D_DG1_DT2OPNOP11380.52OP11
66nua_D_DT2_DC3AAAAA02610.49AA02
76nua_D_DG5_DG6BB2BB07350.40BB07
86nua_D_DG6_DA7BBBBB00660.39BB00

Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.

© Jiří Černý & Bohdan Schneider

Definition of torsion angles
step:
Table of conformers

δεζα1β1γ1δ1χχ1NCCNNNCC
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

Drag the plot for panning, scroll to zoom, click a point to show superposition in JSmol.

Download

Results (as csv)
Restraints (default edits file)
Best NtC fitted to input structure.

Definition of the conformers as torsion averages (csv) and their esd values (csv) or as their Cartesian coordinates of the 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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