DNATCO v3.1: results

Mycobacterium tuberculosis transcription initiation complex with ECF sigma factor sigma H and 6nt RNA

Results of the assignment of 46 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	6jcx_H_DT3_DG4	NAN	NANT	0	0.50	AB02
02	6jcx_H_DG4_DC5	NAN	NANT	0	0.68	AB02
03	6jcx_H_DC5_DA6	BB1	BB16	31	0.61	BB16
04	6jcx_H_DA6_DT7	BBB	BB00	55	0.34	BB00
05	6jcx_H_DT7_DC8	miB	BB15	55	0.35	BB15
06	6jcx_H_DC8_DC9	B12	BB04	40	0.35	BB04
07	6jcx_H_DC9_DG10	miB	BB10	83	0.16	BB10
08	6jcx_H_DG10_DT11	NAN	NANT	0	0.42	BA05
09	6jcx_H_DT11_DG12	AAA	AA08	69	0.25	AA08
10	6jcx_H_DG12_DA13	AAA	AA00	74	0.21	AA00
11	6jcx_H_DA13_DG14	NAN	NANT	0	0.83	OP06
12	6jcx_H_DG14_DT15	AAA	AA00	57	0.33	AA00
13	6jcx_H_DT15_DC16	AAA	AA00	70	0.21	AA00
14	6jcx_H_DC16_DG17	NAN	NANT	0	0.37	AA01
15	6jcx_H_DG17_DA18	AAA	AA00	22	0.31	AA00
16	6jcx_H_DA18_DG19	A-B	AB05	51	0.27	AB05
17	6jcx_H_DG19_DG20	BBB	BB00	72	0.20	BB00
18	6jcx_H_DG20_DG21	NAN	NANT	0	0.79	BB16
19	6jcx_H_DG21_DT22	NAN	NANT	0	2.10	OP14
20	6jcx_G_DT3_DT4	NAN	NANT	0	2.32	OP09
21	6jcx_G_DT4_DG5	NAN	NANT	0	1.37	OP20
22	6jcx_G_DG5_DT6	NAN	NANT	0	1.28	IC01
23	6jcx_G_DT6_DG7	NAN	NANT	0	0.81	AB02
24	6jcx_G_DG7_DG8	NAN	NANT	0	1.62	IC03
25	6jcx_G_DG8_DG9	NAN	NANT	0	0.93	IC05
26	6jcx_G_DG9_DA10	BBB	BB00	38	0.48	BB00
27	6jcx_G_DA10_DG11	NAN	NANT	0	0.81	BB08
28	6jcx_G_DG11_DC12	B-A	BA10	34	0.61	BA10
29	6jcx_G_DC12_DT13	NAN	NANT	0	1.05	OP14
30	6jcx_G_DT13_DG14	NAN	NANT	0	1.85	OP04
31	6jcx_G_DG14_DT15	NAN	NANT	0	1.14	OP16
32	6jcx_G_DT15_DC16	BBB	BB00	70	0.24	BB00
33	6jcx_G_DC16_DA17	B12	BB04	24	0.21	BB04
34	6jcx_G_DA17_DC18	BBB	BB00	91	0.13	BB00
35	6jcx_G_DC18_DG19	BBB	BB00	70	0.25	BB00
36	6jcx_G_DG19_DG20	B-A	BA08	52	0.38	BA08
37	6jcx_G_DG20_DA21	NAN	NANT	0	0.53	AB03
38	6jcx_G_DA21_DT22	BBB	BB00	58	0.31	BB00
39	6jcx_G_DT22_DG23	B12	BB04	47	0.32	BB04
40	6jcx_G_DG23_DC24	miB	BB10	56	0.25	BB10
41	6jcx_G_DC24_DA25	NAN	NANT	0	0.45	BB10
42	6jcx_I_C2_C3	AAA	AA00	86	0.14	AA00
43	6jcx_I_C3_U4	AAA	AA00	18	0.29	AA00
44	6jcx_I_U4_C5	AAA	AA00	29	0.19	AA00
45	6jcx_I_C5_G6	AAA	AA00	74	0.23	AA00
46	6jcx_I_G6_A7	A-B	AB05	84	0.11	AB05

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

IC

OPN

Z

N

Click the Table/Summary/Similar tabs for more details.
Center view on step or molecule.
Show reference	model altloc