DNATCO v3.2: results

Crystal Structure of the Ku heterodimer bound to DNA

Results of the assignment of 47 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.

Click a row in table or a step in JSmol for analysis of results. Click column headers to sort data.

step number	Step name	CANA	NtC	confal	rmsd
01	1jey_C_DG1_DT2	BBB	BB00	34	0.45	BB00
02	1jey_C_DT2_DT3	BBB	BB00	85	0.25	BB00
03	1jey_C_DT3_DT4	B12	BB04	59	0.27	BB04
04	1jey_C_DT4_DT5	BBB	BB00	64	0.29	BB00
05	1jey_C_DT5_DT6	B12	BB04	73	0.21	BB04
06	1jey_C_DT6_DA7	BB2	BB07	65	0.25	BB07
07	1jey_C_DA7_DG8	BBB	BB00	96	0.10	BB00
08	1jey_C_DG8_DT9	BBw	BB02	35	0.35	BB02
09	1jey_C_DT9_DT10	BBB	BB00	32	0.40	BB00
10	1jey_C_DT10_DT11	B12	BB04	47	0.36	BB04
11	1jey_C_DT11_DA12	BB2	BB07	44	0.24	BB07
12	1jey_C_DA12_DT13	miB	BB10	72	0.27	BB10
13	1jey_C_DT13_DT14	BBB	BB00	84	0.14	BB00
14	1jey_C_DT14_DG15	NAN	NANT	0	0.68	IC06
15	1jey_C_DG15_DG16	BBB	BB00	69	0.33	BB00
16	1jey_C_DG16_DG17	B12	BB04	85	0.26	BB04
17	1jey_C_DG17_DC18	BBB	BB00	88	0.18	BB00
18	1jey_D_DG4_DC5	NAN	NANT	0	0.63	BB17
19	1jey_D_DC5_DC6	B12	BB04	64	0.27	BB04
20	1jey_D_DC6_DC7	B12	BB04	54	0.23	BB04
21	1jey_D_DC7_DA8	NAN	NANT	0	1.25	BB17
22	1jey_D_DA8_DG9	BBB	BB00	63	0.34	BB00
23	1jey_D_DG9_DC10	B12	BB04	71	0.23	BB04
24	1jey_D_DC10_DT11	B12	BB04	84	0.17	BB04
25	1jey_D_DT11_DT12	NAN	NANT	0	0.70	OP13
26	1jey_D_DT12_DT13	NAN	NANT	0	2.25	OP10
27	1jey_D_DT13_DC14	NAN	NANT	0	1.17	BB20
28	1jey_D_DC14_DC15	NAN	NANT	0	1.38	OP16
29	1jey_D_DC15_DC16	NAN	NANT	0	1.89	ZZ01
30	1jey_D_DC16_DA17	NAN	NANT	0	1.13	BB00
31	1jey_D_DA17_DG18	BBB	BB00	79	0.27	BB00
32	1jey_D_DG18_DC19	miB	BB10	70	0.27	BB10
33	1jey_D_DC19_DT20	NAN	NANT	0	0.64	BB10
34	1jey_D_DT20_DA21	NAN	NANT	0	1.12	BB00
35	1jey_D_DA21_DA22	BBB	BB00	71	0.31	BB00
36	1jey_D_DA22_DT23	BBB	BB00	70	0.29	BB00
37	1jey_D_DT23_DA24	B12	BB04	62	0.24	BB04
38	1jey_D_DA24_DA25	B12	BB04	84	0.18	BB04
39	1jey_D_DA25_DA26	BBw	BB02	72	0.14	BB02
40	1jey_D_DA26_DC27	BBB	BB00	68	0.31	BB00
41	1jey_D_DC27_DT28	BBB	BB00	57	0.30	BB00
42	1jey_D_DT28_DA29	BBB	BB00	90	0.14	BB00
43	1jey_D_DA29_DA30	B12	BB04	87	0.22	BB04
44	1jey_D_DA30_DA31	B12	BB04	87	0.13	BB04
45	1jey_D_DA31_DA32	BBB	BB00	78	0.24	BB00
46	1jey_D_DA32_DA33	B12	BB04	86	0.21	BB04
47	1jey_D_DA33_DC34	BBB	BB00	74	0.29	BB00

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

step:
Table of conformers

δ1

ε1

ζ1

α2

β2

γ2

δ2

χ1

χ2

μ

NN

CC

step_torsions

ntC_average

Δ torsions

torsion scores

comments step 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).

Browse conformers

Show

Color by conformation group (pyramids)

Color by conformation group (pyramids)

group
visible

Color by NtC (balls)

Color by NtC (balls)

A

A-B

B-A

IC

OPN

Z

N

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