DNATCO v3.1: results

INSIGHTS INTO EDITING FROM AN ILE-TRNA SYNTHETASE STRUCTURE WITH TRNA(ILE) AND MUPIROCIN

Results of the assignment of 74 detected steps in 1 model(s), can be also downloaded as csv 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	1qu2_T_G1_G2	AAA	AA00	36	0.34	AA00
02	1qu2_T_G2_G3	AAA	AA00	74	0.32	AA00
03	1qu2_T_G3_C4	AAA	AA08	87	0.12	AA08
04	1qu2_T_C4_U5	AAA	AA00	72	0.20	AA00
05	1qu2_T_U5_U6	AAA	AA00	47	0.37	AA00
06	1qu2_T_U6_G7	NAN	NANT	0	0.51	AB04
07	1qu2_T_G7_U8	NAN	NANT	0	0.34	OP11
08	1qu2_T_U8_A9	NAN	NANT	0	1.14	IC04
09	1qu2_T_A9_G10	NAN	NANT	0	1.33	OP07
10	1qu2_T_G10_C11	AAA	AA00	23	0.35	AA00
11	1qu2_T_C11_U12	AAA	AA00	87	0.15	AA00
12	1qu2_T_U12_C13	AA1	AA01	91	0.18	AA01
13	1qu2_T_C13_A14	NAN	NANT	0	0.62	IC03
14	1qu2_T_A14_G15	AA1	AA01	15	0.53	AA01
15	1qu2_T_G15_G16	NAN	NANT	0	0.94	OP06
16	1qu2_T_G16_U17	NAN	NANT	0	0.90	AA01
17	1qu2_T_U17_G18	NAN	NANT	0	1.49	OP06
18	1qu2_T_G18_G19	NAN	NANT	0	1.16	AB02
19	1qu2_T_G19_U20	NAN	NANT	0	1.64	OP17
20	1qu2_T_U20_U21	NAN	NANT	0	0.69	ZZ01
21	1qu2_T_A21.A_G22	NAN	NANT	0	1.04	AA11
22	1qu2_T_U21_A21.A	NAN	NANT	0	0.46	OP13
23	1qu2_T_G22_A23	AAA	AA03	70	0.22	AA03
24	1qu2_T_A23_G24	AAA	AA08	86	0.24	AA08
25	1qu2_T_G24_C25	AAA	AA08	80	0.27	AA08
26	1qu2_T_C25_G26	AAA	AA00	64	0.32	AA00
27	1qu2_T_G26_C27	AAA	AA00	75	0.23	AA00
28	1qu2_T_C27_A28	AAA	AA00	84	0.20	AA00
29	1qu2_T_A28_C29	AAA	AA00	82	0.24	AA00
30	1qu2_T_C29_C30	AAA	AA00	92	0.14	AA00
31	1qu2_T_C30_C31	AAA	AA00	90	0.17	AA00
32	1qu2_T_C31_C32	AAA	AA00	86	0.19	AA00
33	1qu2_T_C32_U33	NAN	NANT	0	0.47	AB04
34	1qu2_T_U33_G34	NAN	NANT	0	0.85	OP21
35	1qu2_T_G34_A35	NAN	NANT	0	1.38	OP16
36	1qu2_T_A35_U36	NAN	NANT	0	2.12	OP15
37	1qu2_T_U36_A37	NAN	NANT	0	0.96	OP21
38	1qu2_T_A37_A38	NAN	NANT	0	1.67	OP17
39	1qu2_T_A38_G39	AAA	AA00	31	0.43	AA00
40	1qu2_T_G39_G40	AAA	AA00	60	0.29	AA00
41	1qu2_T_G40_G41	AAA	AA00	85	0.14	AA00
42	1qu2_T_G41_U42	AAA	AA00	73	0.20	AA00
43	1qu2_T_U42_G43	AAA	AA00	89	0.18	AA00
44	1qu2_T_G43_A44	AAA	AA00	52	0.29	AA00
45	1qu2_T_A44_G45	NAN	NANT	0	0.93	IC04
46	1qu2_T_G45_G46	NAN	NANT	0	0.63	IC03
47	1qu2_T_G46_U47	NAN	NANT	0	1.11	OP12
48	1qu2_T_U47_C48	NAN	NANT	0	1.68	BB10
49	1qu2_T_C48_G49	NAN	NANT	0	1.23	OP05
50	1qu2_T_G49_G50	AAA	AA00	63	0.23	AA00
51	1qu2_T_G50_U51	AAA	AA00	85	0.15	AA00
52	1qu2_T_U51_G52	AAA	AA00	45	0.20	AA00
53	1qu2_T_G52_G53	AA1	AA01	93	0.10	AA01
54	1qu2_T_G53_U54	AAA	AA00	60	0.27	AA00
55	1qu2_T_U54_U55	AAA	AA00	57	0.37	AA00
56	1qu2_T_U55_C56	OPN	OP04	93	0.14	OP04
57	1qu2_T_C56_A57	AAA	AA00	81	0.27	AA00
58	1qu2_T_A57_A58	NAN	NANT	0	0.41	IC02
59	1qu2_T_A58_G59	NAN	NANT	0	1.63	OP05
60	1qu2_T_G59_U60	AAA	AA00	18	0.48	AA00
61	1qu2_T_U60_C61	NAN	NANT	0	1.49	OP16
62	1qu2_T_C61_C62	AAA	AA00	82	0.19	AA00
63	1qu2_T_C62_A63	AAA	AA00	97	0.12	AA00
64	1qu2_T_A63_C64	AAA	AA00	61	0.27	AA00
65	1qu2_T_C64_U65	AAA	AA00	83	0.19	AA00
66	1qu2_T_U65_C66	AAA	AA00	72	0.28	AA00
67	1qu2_T_C66_A67	AAA	AA00	85	0.15	AA00
68	1qu2_T_A67_G68	AA1	AA01	88	0.22	AA01
69	1qu2_T_G68_G69	AAA	AA08	16	0.43	AA08
70	1qu2_T_G69_C70	AAA	AA00	87	0.23	AA00
71	1qu2_T_C70_C71	AAA	AA00	90	0.12	AA00
72	1qu2_T_C71_C72	AA1	AA01	95	0.17	AA01
73	1qu2_T_C72_A73	AAA	AA00	55	0.32	AA00
74	1qu2_T_A73_C74	NAN	NANT	0	0.94	AA00

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

step:
Table of conformers

δ

ε

ζ

α1

β1

γ1

δ1

χ

χ1

NCCN

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

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

Sigma scaling factor

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

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