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

©Jiří Černý & Bohdan Schneider

Human DNA Polymerase Beta With Gapped DNA Containing an 8-oxo-7,8-dihydro-Guanine (8-oxoG)and dATP soaked with MgCl2 for 60 s

Results of the assignment of 30 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
014rq5_D_DG1_DT2BBBBB00760.20BB00
024rq5_D_DT2_DC3BBBBB00860.17BB00
034rq5_D_DC3_DG4miBBB10800.33BB10
044rq5_D_DG4_DG5B12BB04620.28BB04
054rq5_P_DG1_DC2AAAAA04170.36AA04
064rq5_P_DC2_DT3A-BAB01720.23AB01
074rq5_P_DT3_DG4BBBBB00900.13BB00
084rq5_P_DG4_DA5BBBBB00940.20BB00
094rq5_P_DA5_DT6BBBBB00790.19BB00
104rq5_P_DT6_DG7B-ABA08650.41BA08
114rq5_P_DG7_DC8A-BAB03730.35AB03
124rq5_P_DC8_DG9B-ABA10780.33BA10
134rq5_P_DG9_DC.A10AAAAA00450.32AA00
144rq5_P_DG9_DC.B10AAAAA0060.35AA00
154rq5_P_DC.A10_DA.A11AAAAA00620.22AA00
164rq5_T_DC1_DC2NANNANT00.51BB08
174rq5_T_DC2_DG3BBwBB17510.44BB17
184rq5_T_DG3_DA4NANNANT00.30BB08
194rq5_T_DA4_DC5NANNANT00.58BB17
204rq5_T_DC5_8OG6NANNANT01.89BB1S
214rq5_T_8OG6_DG7SYNBBS1500.37BBS1
224rq5_T_DG7_DC8BBBBB00360.25BB00
234rq5_T_DC8_DG9B12BB04590.34BB04
244rq5_T_DG9_DC10BBBBB00740.17BB00
254rq5_T_DC10_DA11BBBBB00760.20BB00
264rq5_T_DA11_DT12BBBBB00820.17BB00
274rq5_T_DT12_DC13BBBBB00650.30BB00
284rq5_T_DC13_DA14NANNANT00.36BB15
294rq5_T_DA14_DG15BBBBB00650.22BB00
304rq5_T_DG15_DC16miBBB12820.23BB12

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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