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

©Jiří Černý & Bohdan Schneider

DNA Polymerase Mu, 8-oxorGTP:At Product State Ternary Complex, 50 mM Mn2+ (120 min)

Results of the assignment of 16 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
016vf5_T_DC1_DG2A-BAB01580.27AB01
026vf5_T_DG2_DG3BBBBB01760.20BB01
036vf5_T_DG3_DC4BBBBB01680.25BB01
046vf5_T_DC4_DA5NANNANT01.15OP21
056vf5_T_DA5_DT6BBBBB00600.30BB00
066vf5_T_DT6_DA7B-ABA10540.45BA10
076vf5_T_DA7_DC8A-BAB05920.18AB05
086vf5_T_DC8_DG9BBBBB00180.45BB00
096vf5_P_DC1_DG2AAAAA00890.17AA00
106vf5_P_DG2_DT3AAAAA00860.20AA00
116vf5_P_DT3_DA4AAAAA00860.18AA00
126vf5_D_DG1_DC2B-ABA01160.26BA01
136vf5_D_DC2_DC.A3AAAAA02270.51AA02
146vf5_D_DC2_DC.B3A-BAB01210.32AB01
156vf5_D_DC.A3_DG.A4A-BAB02680.38AB02
166vf5_D_DC.B3_DG.B4BBBBB00840.25BB00

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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