DNATCO v3.2: results

Crystal structure of Aquifex aeolicus RNase III (D44N) complexed with product of double-stranded RNA processing

Results of the assignment of 54 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	2ez6_C_A1_A2	AAA	AA00	71	0.18	AA00
02	2ez6_C_A2_A3	AAA	AA00	80	0.19	AA00
03	2ez6_C_A3_G4	AAA	AA00	90	0.12	AA00
04	2ez6_C_G4_G5	AAA	AA00	94	0.14	AA00
05	2ez6_C_G5_U6	AAA	AA00	69	0.24	AA00
06	2ez6_C_U6_C7	AAA	AA00	72	0.24	AA00
07	2ez6_C_C7_A8	AAA	AA00	95	0.15	AA00
08	2ez6_C_A8_U9	AAA	AA00	75	0.20	AA00
09	2ez6_C_U9_U10	AAA	AA00	92	0.16	AA00
10	2ez6_C_U10_C11	AAA	AA00	86	0.20	AA00
11	2ez6_C_C11_G12	AAA	AA00	69	0.32	AA00
12	2ez6_C_G12_C13	NAN	NANT	0	2.00	OP17
13	2ez6_C_C13_A14	AAA	AA08	62	0.53	AA08
14	2ez6_C_A14_A15	AAA	AA00	55	0.32	AA00
15	2ez6_C_A15_G16	AAA	AA08	16	0.68	AA08
16	2ez6_C_G16_A17	AAA	AA00	84	0.22	AA00
17	2ez6_C_A17_G18	AAA	AA00	87	0.18	AA00
18	2ez6_C_G18_U19	AAA	AA00	93	0.17	AA00
19	2ez6_C_U19_G20	AAA	AA00	86	0.11	AA00
20	2ez6_C_G20_G21	AAA	AA00	70	0.25	AA00
21	2ez6_C_G21_C22	AAA	AA00	89	0.22	AA00
22	2ez6_C_C22_C23	AAA	AA00	95	0.12	AA00
23	2ez6_C_C23_U24	AAA	AA00	87	0.16	AA00
24	2ez6_C_U24_U25	AAA	AA00	80	0.18	AA00
25	2ez6_C_U25_U26	AAA	AA00	96	0.18	AA00
26	2ez6_C_U26_A27	AAA	AA00	94	0.15	AA00
27	2ez6_C_A27_U28	AAA	AA00	90	0.15	AA00
28	2ez6_D_A1_A2	AAA	AA00	74	0.18	AA00
29	2ez6_D_A2_A3	AAA	AA00	79	0.16	AA00
30	2ez6_D_A3_G4	AAA	AA00	92	0.10	AA00
31	2ez6_D_G4_G5	AAA	AA00	94	0.11	AA00
32	2ez6_D_G5_U6	AAA	AA00	85	0.22	AA00
33	2ez6_D_U6_C7	AAA	AA00	75	0.23	AA00
34	2ez6_D_C7_A8	AAA	AA00	93	0.13	AA00
35	2ez6_D_A8_U9	AAA	AA00	86	0.18	AA00
36	2ez6_D_U9_U10	AAA	AA00	88	0.15	AA00
37	2ez6_D_U10_C11	AAA	AA00	82	0.21	AA00
38	2ez6_D_C11_G12	AAA	AA00	78	0.29	AA00
39	2ez6_D_G12_C13	OPN	OP03	85	0.09	OP03
40	2ez6_D_C13_A14	AAA	AA08	72	0.36	AA08
41	2ez6_D_A14_A15	AAA	AA00	74	0.25	AA00
42	2ez6_D_A15_G16	AAA	AA08	32	0.63	AA08
43	2ez6_D_G16_A17	AAA	AA00	91	0.18	AA00
44	2ez6_D_A17_G18	AAA	AA00	75	0.15	AA00
45	2ez6_D_G18_U19	AAA	AA00	93	0.15	AA00
46	2ez6_D_U19_G20	AAA	AA00	92	0.10	AA00
47	2ez6_D_G20_G21	AAA	AA00	72	0.25	AA00
48	2ez6_D_G21_C22	AAA	AA00	92	0.19	AA00
49	2ez6_D_C22_C23	AAA	AA00	90	0.15	AA00
50	2ez6_D_C23_U24	AAA	AA00	91	0.19	AA00
51	2ez6_D_U24_U25	AAA	AA00	83	0.19	AA00
52	2ez6_D_U25_U26	AAA	AA00	77	0.17	AA00
53	2ez6_D_U26_A27	AAA	AA00	77	0.15	AA00
54	2ez6_D_A27_U28	AAA	AA08	87	0.13	AA08

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

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OPN

Z

N

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