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

©Jiří Černý & Bohdan Schneider

RB69 DNA Polymerase (Y567A) ternary complex with dATP Opposite 7,8-dihydro-8-oxoguanine

Results of the assignment of 28 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
013lzi_T_DT1_DC2NANNANT01.38AA11
023lzi_T_DC2_DA3NANNANT01.09ZZS2
033lzi_T_DA3_8OG4NANNANT01.25OP17
043lzi_T_8OG4_DG5SYNAAS1610.45AAS1
053lzi_T_DG5_DT6A-BAB05570.29AB05
063lzi_T_DT6_DA7BBBBB00680.29BB00
073lzi_T_DA7_DA8BBBBB00780.27BB00
083lzi_T_DA8_DG9B12BB04610.27BB04
093lzi_T_DG9_DC10BBBBB00770.25BB00
103lzi_T_DC10_DA11BBBBB00840.31BB00
113lzi_T_DA11_DG12B-ABA05680.24BA05
123lzi_T_DG12_DT13BBBBB00100.42BB00
133lzi_T_DT13_DC14BBBBB00910.17BB00
143lzi_T_DC14_DC15BBBBB01740.20BB01
153lzi_T_DC15_DG16BBBBB00720.26BB00
163lzi_T_DG16_DC17BBBBB00480.31BB00
173lzi_T_DC17_DG18NANNANT01.00OP17
183lzi_P_DG103_DC104BB2BB07250.45BB07
193lzi_P_DC104_DG105NANNANT00.62BA17
203lzi_P_DG105_DG106A-BAB02350.40AB02
213lzi_P_DG106_DA107BBBBB00750.25BB00
223lzi_P_DA107_DC108NANNANT00.48BA09
233lzi_P_DC108_DT109A-BAB05410.25AB05
243lzi_P_DT109_DG110BBBBB01600.16BB01
253lzi_P_DG110_DC111B-ABA05790.23BA05
263lzi_P_DC111_DT112BBBBB01790.17BB01
273lzi_P_DT112_DT113BBBBB01450.34BB01
283lzi_P_DT113_DA114BBBBB00380.27BB00

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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