DNATCO v3.2: results

Antitoxin Phd from phage P1 in complex with its operator DNA inverted repeat

Results of the assignment of 50 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	4zm0_E_DC2_DT3	NAN	NANT	0	0.93	AA03
02	4zm0_E_DT3_DT4	A-B	AB03	78	0.24	AB03
03	4zm0_E_DT4_DG5	B12	BB04	69	0.28	BB04
04	4zm0_E_DG5_DT6	BBB	BB00	11	0.35	BB00
05	4zm0_E_DT6_DG7	BBB	BB01	72	0.29	BB01
06	4zm0_E_DG7_DT8	B-A	BA05	74	0.25	BA05
07	4zm0_E_DT8_DA9	miB	BB10	18	0.26	BB10
08	4zm0_E_DA9_DC10	miB	BB10	79	0.33	BB10
09	4zm0_E_DC10_DA11	BBB	BB00	57	0.29	BB00
10	4zm0_E_DA11_DC12	B12	BB04	29	0.23	BB04
11	4zm0_E_DC12_DA13	BBB	BB00	61	0.27	BB00
12	4zm0_E_DA13_DT14	B-A	BA01	20	0.29	BA01
13	4zm0_F_DC1_DA2	BBB	BB00	84	0.18	BB00
14	4zm0_F_DA2_DT3	BBB	BB00	91	0.15	BB00
15	4zm0_F_DT3_DG4	B12	BB04	71	0.23	BB04
16	4zm0_F_DG4_DT5	BBB	BB00	51	0.25	BB00
17	4zm0_F_DT5_DG6	B12	BB04	51	0.18	BB04
18	4zm0_F_DG6_DT7	BBB	BB01	54	0.32	BB01
19	4zm0_F_DT7_DA8	miB	BB10	34	0.26	BB10
20	4zm0_F_DA8_DC9	B-A	BA08	73	0.27	BA08
21	4zm0_F_DC9_DA10	A-B	AB03	74	0.26	AB03
22	4zm0_F_DA10_DC11	B12	BB04	25	0.25	BB04
23	4zm0_F_DC11_DA12	BBB	BB00	53	0.26	BB00
24	4zm0_F_DA12_DA13	BBB	BB00	80	0.20	BB00
25	4zm0_G_DG1_DC2	NAN	NANT	0	0.45	BA08
26	4zm0_G_DC2_DT3	A-B	AB05	22	0.22	AB05
27	4zm0_G_DT3_DT4	BBB	BB00	81	0.23	BB00
28	4zm0_G_DT4_DG5	B12	BB04	67	0.26	BB04
29	4zm0_G_DG5_DT6	BBB	BB00	13	0.33	BB00
30	4zm0_G_DT6_DG7	BBB	BB01	74	0.28	BB01
31	4zm0_G_DG7_DT8	B-A	BA05	74	0.24	BA05
32	4zm0_G_DT8_DA9	miB	BB10	17	0.27	BB10
33	4zm0_G_DA9_DC10	miB	BB10	78	0.33	BB10
34	4zm0_G_DC10_DA11	BBB	BB00	57	0.29	BB00
35	4zm0_G_DA11_DC12	B12	BB04	37	0.24	BB04
36	4zm0_G_DC12_DA13	BBB	BB00	64	0.26	BB00
37	4zm0_G_DA13_DT14	B-A	BA01	27	0.23	BA01
38	4zm0_H_DC1_DA2	NAN	NANT	0	0.81	BB00
39	4zm0_H_DA2_DT3	BBB	BB00	92	0.14	BB00
40	4zm0_H_DT3_DG4	B12	BB04	74	0.23	BB04
41	4zm0_H_DG4_DT5	BBB	BB00	48	0.27	BB00
42	4zm0_H_DT5_DG6	B12	BB04	54	0.18	BB04
43	4zm0_H_DG6_DT7	BBB	BB01	55	0.32	BB01
44	4zm0_H_DT7_DA8	miB	BB10	35	0.26	BB10
45	4zm0_H_DA8_DC9	B-A	BA08	73	0.27	BA08
46	4zm0_H_DC9_DA10	A-B	AB03	74	0.25	AB03
47	4zm0_H_DA10_DC11	B12	BB04	19	0.25	BB04
48	4zm0_H_DC11_DA12	BBB	BB00	50	0.26	BB00
49	4zm0_H_DA12_DA13	BBB	BB00	79	0.20	BB00
50	4zm0_H_DA13_DG14	NAN	NANT	0	0.66	BA08

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

B

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