DNATCO v3.2: results

Crystal structure of pseudoudirinde synthase TruA in complex with leucyl tRNA

Results of the assignment of 53 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	2nre_F_A5_G6	AAw	AA06	17	0.43	AA06
02	2nre_F_G6_G7	NAN	NANT	0	0.51	AA03
03	2nre_F_G7_U8	NAN	NANT	0	1.53	OP31
04	2nre_F_U8_G9	NAN	NANT	0	1.20	IC07
05	2nre_F_G9_G10	NAN	NANT	0	1.30	OP04
06	2nre_F_G10_U11	NAN	NANT	0	0.64	AA04
07	2nre_F_U11_G12	AAA	AA00	35	0.24	AA00
08	2nre_F_G12_G13	NAN	NANT	0	0.83	AA04
09	2nre_F_G13_A14	NAN	NANT	0	0.82	OP08
10	2nre_F_A14_A15	NAN	NANT	0	0.62	AA10
11	2nre_F_A15_U16	NAN	NANT	0	0.83	OP06
12	2nre_F_U16_U17	NAN	NANT	0	1.46	OP17
13	2nre_F_U17_G18	NAN	NANT	0	1.61	OP17
14	2nre_F_G18_G19	NAN	NANT	0	0.64	IC06
15	2nre_F_G19_U20	NAN	NANT	0	1.59	OP13
16	2nre_F_A20.A_G21	AAA	AA04	69	0.31	AA04
17	2nre_F_U20_A20.A	NAN	NANT	0	0.69	OP05
18	2nre_F_G21_A22	NAN	NANT	0	0.78	OP02
19	2nre_F_A22_C23	AAw	AA05	21	0.58	AA05
20	2nre_F_C23_A24	NAN	NANT	0	0.68	AA10
21	2nre_F_A24_C25	NAN	NANT	0	1.08	BA09
22	2nre_F_C25_G26	NAN	NANT	0	0.61	AA06
23	2nre_F_G26_C27	AAw	AA11	88	0.19	AA11
24	2nre_F_C27_U28	NAN	NANT	0	0.87	AA12
25	2nre_F_U28_A29	AAw	AA06	56	0.48	AA06
26	2nre_F_A29_C30	AAA	AA08	67	0.48	AA08
27	2nre_F_C30_C31	NAN	NANT	0	0.97	AA04
28	2nre_F_G39_G40	NAN	NANT	0	0.47	AA11
29	2nre_F_G40_U41	AAA	AA08	15	0.44	AA08
30	2nre_F_U41_A42	AAw	AA06	33	0.32	AA06
31	2nre_F_A42_G43	NAN	NANT	0	0.43	AA08
32	2nre_F_G43_U44	NAN	NANT	0	0.44	AB04
33	2nre_F_U48_A49	NAN	NANT	0	1.51	OP06
34	2nre_F_A49_C50	AAA	AA08	46	0.26	AA08
35	2nre_F_C50_G51	AAA	AA00	40	0.28	AA00
36	2nre_F_G51_G52	AAw	AA06	33	0.31	AA06
37	2nre_F_G52_G53	AAA	AA00	68	0.27	AA00
38	2nre_F_G53_U54	AAA	AA00	38	0.16	AA00
39	2nre_F_U54_U55	AAA	AA00	47	0.40	AA00
40	2nre_F_U55_C56	OPN	OP04	10	0.36	OP04
41	2nre_F_C56_A57	AAA	AA00	15	0.51	AA00
42	2nre_F_A57_A58	NAN	NANT	0	0.75	AA03
43	2nre_F_A58_G59	NAN	NANT	0	1.40	OP05
44	2nre_F_G59_U60	NAN	NANT	0	0.69	AA04
45	2nre_F_U60_C61	NAN	NANT	0	0.41	OP12
46	2nre_F_C61_C62	AAw	AA10	12	0.56	AA10
47	2nre_F_C62_C63	AAA	AA03	66	0.30	AA03
48	2nre_F_C63_G64	AAw	AA06	84	0.32	AA06
49	2nre_F_G64_U65	AAA	AA08	33	0.47	AA08
50	2nre_F_U65_C66	AAA	AA03	20	0.35	AA03
51	2nre_F_C66_C67	NAN	NANT	0	0.37	AA10
52	2nre_F_C67_U68	AAA	AA00	14	0.54	AA00
53	2nre_F_U68_C69	NAN	NANT	0	1.02	AB04

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

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B

IC

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Z

N

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