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

©Jiří Černý & Bohdan Schneider

MBD2 in complex with a partially methylated DNA

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.

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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
016c1t_B_DG1_DC2BBBBB00720.23BB00
026c1t_B_DC2_DC3BBBBB01160.21BB01
036c1t_B_DC3_DT4A-BAB03880.29AB03
046c1t_B_DT4_DA5B-ABA05700.32BA05
056c1t_B_DA5_5CM6BBBBB01420.35BB01
066c1t_B_5CM6_DA7B12BB04810.22BB04
076c1t_B_DA7_DC8B-ABA05910.22BA05
086c1t_B_DC8_DT9A-BAB01110.35AB01
096c1t_B_DT9_DC10BBBBB00110.35BB00
106c1t_B_DC10_DC11BBBBB00300.32BB00
116c1t_B_DC11_DG12B-ABA17890.28BA17
126c1t_C_DC1_DG2BBBBB00740.31BB00
136c1t_C_DG2_DG3BBBBB00800.29BB00
146c1t_C_DG3_DA4BB2BB07870.29BB07
156c1t_C_DA4_DG5BBBBB00780.16BB00
166c1t_C_DG5_DT6BBBBB00850.26BB00
176c1t_C_DT6_DG7BBBBB00670.33BB00
186c1t_C_DG7_DT8BBBBB00770.31BB00
196c1t_C_DT8_DA9BB2BB07670.34BB07
206c1t_C_DA9_DG10BBBBB00770.21BB00
216c1t_C_DG10_DG11B12BB04860.13BB04
226c1t_C_DG11_DC12B-ABA01770.26BA01

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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