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

©Jiří Černý & Bohdan Schneider

DNA Polymerase Mu (K438D), 8-oxodGTP:Ct Ground State Ternary Complex, 50 mM Mg2+ (90min)

Results of the assignment of 14 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
017ktk_T_DC1_DG2A-BAB01650.28AB01
027ktk_T_DG2_DG3BBBBB00870.20BB00
037ktk_T_DG3_DC4BBBBB00640.27BB00
047ktk_T_DC4_DC5NANNANT01.17OP21
057ktk_T_DC5_DT6B-ABA01430.32BA01
067ktk_T_DT6_DA7A-BAB01530.23AB01
077ktk_T_DA7_DC8BBBBB00820.33BB00
087ktk_T_DC8_DG9BBBBB00210.43BB00
097ktk_P_DC1_DG2AAAAA00900.22AA00
107ktk_P_DG2_DT3AAAAA00890.16AA00
117ktk_P_DT3_DA4NANNANT00.31ZZ01
127ktk_D_DG1_DC2B-ABA01250.28BA01
137ktk_D_DC2_DC3A-BAB01250.40AB01
147ktk_D_DC3_DG4BBBBB00720.33BB00

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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