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

©Jiří Černý & Bohdan Schneider

Open and closed ternary complex of R283K DNA polymerase beta with a dCTP analog in the same asymmetric unit

Results of the assignment of 56 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
014f5r_D_DG1_DT2BBBBB01850.20BB01
024f5r_D_DT2_DC3B-ABA05800.27BA05
034f5r_D_DC3_DG4A-BAB01220.17AB01
044f5r_D_DG4_DG5B12BB04230.22BB04
054f5r_P_DG1_DC2BBBBB00500.26BB00
064f5r_P_DC2_DT3BBBBB01770.19BB01
074f5r_P_DT3_DG4BBBBB00700.25BB00
084f5r_P_DG4_DA5BBBBB00860.23BB00
094f5r_P_DA5_DT6BBBBB00790.15BB00
104f5r_P_DT6_DG7BBBBB00260.19BB00
114f5r_P_DG7_DC8B-ABA05820.15BA05
124f5r_P_DC8_DG9A-BAB01560.27AB01
134f5r_P_DG9_DC10miBBB12680.24BB12
144f5r_T_DC1_DC2B-ABA01260.19BA01
154f5r_T_DC2_DG3A-BAB01760.22AB01
164f5r_T_DG3_DA4BBBBB00830.25BB00
174f5r_T_DA4_DC5B-ABA05670.22BA05
184f5r_T_DC5_DG6NANNANT01.31OP21
194f5r_T_DG6_DG7BBBBB00510.30BB00
204f5r_T_DG7_DC8B-ABA17910.20BA17
214f5r_T_DC8_DG9BBBBB00190.41BB00
224f5r_T_DG9_DC10BBBBB00890.18BB00
234f5r_T_DC10_DA11BBBBB00880.22BB00
244f5r_T_DA11_DT12BBBBB01500.25BB01
254f5r_T_DT12_DC13BBBBB01490.24BB01
264f5r_T_DC13_DA14BBBBB00210.20BB00
274f5r_T_DA14_DG15BBBBB00780.15BB00
284f5r_T_DG15_DC16miBBB12860.25BB12
294f5r_C_DG1_DT2BBBBB01760.21BB01
304f5r_C_DT2_DC3B-ABA05500.33BA05
314f5r_C_DC3_DG4A-BAB01530.22AB01
324f5r_C_DG4_DG5BBBBB00120.26BB00
334f5r_G_DG1_DC2BBBBB00820.17BB00
344f5r_G_DC2_DT3BBBBB00910.16BB00
354f5r_G_DT3_DG4B12BB04700.26BB04
364f5r_G_DG4_DA5BBBBB00720.32BB00
374f5r_G_DA5_DT6BBBBB01720.21BB01
384f5r_G_DT6_DG7BBBBB00260.26BB00
394f5r_G_DG7_DC8BBBBB01610.18BB01
404f5r_G_DC8_DG9B-ABA05530.32BA05
414f5r_G_DG9_DC10AAAAA00270.37AA00
424f5r_F_DC1_DC2NANNANT00.42BB16
434f5r_F_DC2_DG3NANNANT00.51BA17
444f5r_F_DG3_DA4B12BB0480.39BB04
454f5r_F_DA4_DC5BBBBB00690.29BB00
464f5r_F_DC5_DG6NANNANT01.36OP21
474f5r_F_DG6_DG7BBBBB00560.32BB00
484f5r_F_DG7_DC8BBBBB00110.41BB00
494f5r_F_DC8_DG9BBBBB00110.55BB00
504f5r_F_DG9_DC10BBBBB00910.19BB00
514f5r_F_DC10_DA11BBBBB00780.23BB00
524f5r_F_DA11_DT12BBBBB00530.17BB00
534f5r_F_DT12_DC13BBBBB00620.27BB00
544f5r_F_DC13_DA14B12BB04600.33BB04
554f5r_F_DA14_DG15BBBBB00660.16BB00
564f5r_F_DG15_DC16miBBB12770.25BB12

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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