Click the Table/Summary/Similar tabs for more details.
Center view on step or molecule.
Show reference model altloc

Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.
Crystal structure of DNA polymerase lambda complexed with a two nucleotide gap DNA molecule

Results of the assignment of 68 detected steps in 1 model(s), can be also downloaded as csv file. Average confal 0, percentile 0.

Your browser does not support the HTML5 canvas tag.
Click a row in table or a step in JSmol for analysis of results. Click column headers to sort data.
step numberStep nameCANANtCconfalrmsd
011rzt_B_DC1_DG2BBBBB00820.32BB00
021rzt_B_DG2_DG3BBBBB00880.13BB00
031rzt_B_DG3_DC4BBBBB00220.38BB00
041rzt_B_DC4_DA5NANNANT01.40OP21
051rzt_B_DA5_DA6BBBBB00740.32BB00
061rzt_B_DA6_DC7BBBBB00670.26BB00
071rzt_B_DC7_DG8BBBBB00620.37BB00
081rzt_B_DG8_DC9BBBBB00730.25BB00
091rzt_B_DC9_DA10BBBBB00830.26BB00
101rzt_B_DA10_DC11BB1BB02550.21BB02
111rzt_C_DG1_DT2BBBBB00520.26BB00
121rzt_C_DT2_DG3BBBBB00870.22BB00
131rzt_C_DG3_DC4BBBBB01850.16BB01
141rzt_C_DC4_DG5BBBBB00620.23BB00
151rzt_D_DG1_DC2BB1BB16540.57BB16
161rzt_D_DC2_DC3BBBBB00940.11BB00
171rzt_D_DC3_DG4BBBBB00350.30BB00
181rzt_F_DC1_DG2BBBBB00760.32BB00
191rzt_F_DG2_DG3BBBBB00960.08BB00
201rzt_F_DG3_DC4BBBBB00390.41BB00
211rzt_F_DC4_DA5NANNANT01.37OP21
221rzt_F_DA5_DA6BBBBB00800.28BB00
231rzt_F_DA6_DC7BBBBB00850.23BB00
241rzt_F_DC7_DG8B12BB04870.18BB04
251rzt_F_DG8_DC9BBBBB00910.19BB00
261rzt_F_DC9_DA10B12BB04930.16BB04
271rzt_F_DA10_DC11BB1BB02750.17BB02
281rzt_G_DG1_DT2BBBBB00570.26BB00
291rzt_G_DT2_DG3BBBBB00920.24BB00
301rzt_G_DG3_DC4BBBBB00880.17BB00
311rzt_G_DC4_DG5BBBBB00840.21BB00
321rzt_H_DG1_DC2BBBBB00780.20BB00
331rzt_H_DC2_DC3BBBBB00960.12BB00
341rzt_H_DC3_DG4BBBBB00590.33BB00
351rzt_J_DC1_DG2BBBBB00780.30BB00
361rzt_J_DG2_DG3BBBBB00920.16BB00
371rzt_J_DG3_DC4BBBBB00330.37BB00
381rzt_J_DC4_DA5NANNANT01.35OP21
391rzt_J_DA5_DA6BBBBB00880.22BB00
401rzt_J_DA6_DC7BBBBB00820.28BB00
411rzt_J_DC7_DG8B12BB04910.15BB04
421rzt_J_DG8_DC9BBBBB00880.22BB00
431rzt_J_DC9_DA10B12BB04910.18BB04
441rzt_J_DA10_DC11BB1BB02620.19BB02
451rzt_K_DG1_DT2BBBBB00550.22BB00
461rzt_K_DT2_DG3BBBBB00950.18BB00
471rzt_K_DG3_DC4BBBBB00670.21BB00
481rzt_K_DC4_DG5BBBBB00740.26BB00
491rzt_L_DG1_DC2BBBBB00700.21BB00
501rzt_L_DC2_DC3BBBBB00950.15BB00
511rzt_L_DC3_DG4B12BB04440.24BB04
521rzt_N_DC1_DG2BBBBB00860.30BB00
531rzt_N_DG2_DG3BBBBB00790.24BB00
541rzt_N_DG3_DC4BBBBB00250.37BB00
551rzt_N_DC4_DA5NANNANT01.33OP21
561rzt_N_DA5_DA6BBBBB00740.31BB00
571rzt_N_DA6_DC7BBBBB00650.27BB00
581rzt_N_DC7_DG8B12BB04590.17BB04
591rzt_N_DG8_DC9BBBBB00850.25BB00
601rzt_N_DC9_DA10BBBBB00650.34BB00
611rzt_N_DA10_DC11BB1BB02550.15BB02
621rzt_O_DG1_DT2BBBBB00540.25BB00
631rzt_O_DT2_DG3BBBBB00960.14BB00
641rzt_O_DG3_DC4BBBBB01850.15BB01
651rzt_O_DC4_DG5BBBBB00530.22BB00
661rzt_P_DG1_DC2AAAAA00650.19AA00
671rzt_P_DC2_DC3AAAAA00500.32AA00
681rzt_P_DC3_DG4NANNANT00.44AA09

Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.

© Jiří Černý & Bohdan Schneider

Definition of torsion angles
step:
Table of conformers

δεζα1β1γ1δ1χχ1NCCNNNCC
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

Drag the plot for panning, scroll to zoom, click a point to show superposition in JSmol.

Download

Results (as csv)
Restraints (default edits file)
Best NtC fitted to input structure.

Definition of the conformers as torsion averages (csv) and their esd values (csv) or as their Cartesian coordinates of the 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).

Show



Color by conformation group (pyramids)

group
visible

Color by NtC (balls)

A

A-B

B-A

B

IC

OPN

Z

N