DNATCO v3.2: results

Variant 9 of Ribonucleoprotein Core of the E. Coli Signal Recognition Particle

Results of the assignment of 46 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	2pxl_B_G130_C131	AAA	AA00	9	0.39	AA00
02	2pxl_B_C131_G132	AAA	AA00	81	0.19	AA00
03	2pxl_B_G132_G133	AAA	AA00	80	0.14	AA00
04	2pxl_B_G133_G134	AAA	AA00	67	0.24	AA00
05	2pxl_B_G134_U135	AAA	AA08	87	0.13	AA08
06	2pxl_B_U135_G136	AAA	AA00	76	0.17	AA00
07	2pxl_B_G136_U137	AAA	AA00	75	0.26	AA00
08	2pxl_B_U137_U138	AAA	AA00	93	0.15	AA00
09	2pxl_B_U138_U139	AAA	AA00	47	0.23	AA00
10	2pxl_B_U139_A140	NAN	NANT	0	1.39	OP17
11	2pxl_B_A140_C141	AAA	AA08	68	0.22	AA08
12	2pxl_B_C141_C142	AAA	AA00	10	0.52	AA00
13	2pxl_B_C142_A143	NAN	NANT	0	0.82	OP06
14	2pxl_B_A143_G144	NAN	NANT	0	0.67	OP29
15	2pxl_B_G144_G145	AAA	AA00	66	0.20	AA00
16	2pxl_B_G145_U146	AAA	AA00	87	0.16	AA00
17	2pxl_B_U146_C147	AAA	AA00	63	0.48	AA00
18	2pxl_B_C147_A148	AAu	AA13	93	0.20	AA13
19	2pxl_B_A148_G149	AAA	AA08	27	0.49	AA08
20	2pxl_B_G149_G150	AAA	AA00	55	0.34	AA00
21	2pxl_B_G150_U151	AAA	AA00	78	0.30	AA00
22	2pxl_B_U151_C152	AAA	AA00	96	0.15	AA00
23	2pxl_B_C152_C153	AAA	AA00	75	0.23	AA00
24	2pxl_B_C153_G154	AAA	AA00	80	0.27	AA00
25	2pxl_B_G154_A155	OPN	OP03	88	0.06	OP03
26	2pxl_B_A155_A156	AAA	AA08	86	0.33	AA08
27	2pxl_B_A156_A157	AAA	AA00	38	0.32	AA00
28	2pxl_B_A157_G158	AAw	AA05	82	0.15	AA05
29	2pxl_B_G158_G159	AAw	AA01	51	0.23	AA01
30	2pxl_B_G159_A160	AAA	AA08	26	0.33	AA08
31	2pxl_B_A160_A161	AAA	AA00	76	0.19	AA00
32	2pxl_B_A161_G162	AAA	AA00	31	0.48	AA00
33	2pxl_B_G162_C163	AAu	AA12	66	0.45	AA12
34	2pxl_B_C163_A164	AAA	AA00	76	0.30	AA00
35	2pxl_B_A164_G165	AAA	AA00	54	0.39	AA00
36	2pxl_B_G165_C166	AAA	AA00	66	0.33	AA00
37	2pxl_B_C166_C167	AAA	AA00	88	0.16	AA00
38	2pxl_B_C167_A168	AAA	AA00	55	0.35	AA00
39	2pxl_B_A168_A169	AAA	AA00	40	0.31	AA00
40	2pxl_B_A169_G170	AAA	AA00	73	0.17	AA00
41	2pxl_B_G170_G171	AAA	AA00	75	0.25	AA00
42	2pxl_B_G171_C172	AAA	AA00	71	0.25	AA00
43	2pxl_B_C172_A173	AAw	AA01	94	0.16	AA01
44	2pxl_B_A173_C174	AAA	AA00	88	0.14	AA00
45	2pxl_B_C174_U175	AAA	AA00	82	0.30	AA00
46	2pxl_B_U175_U176	AAA	AA00	82	0.19	AA00

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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