DNATCO v3.2: results

Structure of DNMT3A (R882H) in complex with CGT DNA

Results of the assignment of 48 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	6w8d_E_DG422_DC423	NAN	NANT	0	0.76	AB02
02	6w8d_E_DC423_DA424	NAN	NANT	0	0.53	AB03
03	6w8d_E_DA424_DT425	NAN	NANT	0	0.43	BB07
04	6w8d_E_DT425_DG426	BBB	BB00	18	0.41	BB00
05	6w8d_E_DG426_PYO427	NAN	NANT	0	1.08	OP17
06	6w8d_E_PYO427_DG428	NAN	NANT	0	1.90	OP21
07	6w8d_E_DG428_DT429	BBB	BB00	44	0.32	BB00
08	6w8d_E_DT429_DT430	BBB	BB00	94	0.12	BB00
09	6w8d_E_DT430_DC431	BBB	BB00	80	0.20	BB00
10	6w8d_E_DC431_DT432	NAN	NANT	0	0.43	BB10
11	6w8d_E_DT432_DA433	B12	BB04	60	0.32	BB04
12	6w8d_E_DA433_DA434	B-A	BA08	27	0.37	BA08
13	6w8d_E_DA434_DT435	NAN	NANT	0	0.62	AB02
14	6w8d_E_DT435_DT436	BBB	BB00	49	0.24	BB00
15	6w8d_E_DT436_DA437	BBB	BB00	48	0.26	BB00
16	6w8d_E_DA437_DG438	NAN	NANT	0	0.61	BA09
17	6w8d_E_DG438_DA439	A-B	AB04	36	0.43	AB04
18	6w8d_E_DA439_DA440	NAN	NANT	0	0.43	BB03
19	6w8d_E_DA440_DC441	A-B	AB02	40	0.47	AB02
20	6w8d_E_DC441_DG442	NAN	NANT	0	0.34	BB01
21	6w8d_E_DG442_DC443	NAN	NANT	0	0.46	AB01
22	6w8d_E_DC443_DA444	NAN	NANT	0	0.57	BB08
23	6w8d_E_DA444_DT445	BBB	BB00	13	0.50	BB00
24	6w8d_E_DT445_DG446	NAN	NANT	0	0.42	BB04
25	6w8d_F_DG422_DC423	BBB	BB00	14	0.50	BB00
26	6w8d_F_DC423_DA424	BB2	BB07	80	0.23	BB07
27	6w8d_F_DA424_DT425	BB2	BB07	14	0.48	BB07
28	6w8d_F_DT425_DG426	BBB	BB00	25	0.41	BB00
29	6w8d_F_DG426_PYO427	NAN	NANT	0	1.13	OP17
30	6w8d_F_PYO427_DG428	NAN	NANT	0	1.88	OP21
31	6w8d_F_DG428_DT429	NAN	NANT	0	0.49	BB13
32	6w8d_F_DT429_DT430	NAN	NANT	0	0.48	BB16
33	6w8d_F_DT430_DC431	B-A	BA10	71	0.31	BA10
34	6w8d_F_DC431_DT432	AAw	AA01	26	0.44	AA01
35	6w8d_F_DT432_DA433	NAN	NANT	0	0.48	AB05
36	6w8d_F_DA433_DA434	NAN	NANT	0	0.74	BB03
37	6w8d_F_DA434_DT435	NAN	NANT	0	0.57	AB02
38	6w8d_F_DT435_DT436	A-B	AB02	52	0.48	AB02
39	6w8d_F_DT436_DA437	NAN	NANT	0	0.41	BB10
40	6w8d_F_DA437_DG438	NAN	NANT	0	0.58	BA17
41	6w8d_F_DG438_DA439	NAN	NANT	0	0.46	AB02
42	6w8d_F_DA439_DA440	NAN	NANT	0	0.53	AB02
43	6w8d_F_DA440_DC441	NAN	NANT	0	0.77	AB02
44	6w8d_F_DC441_DG442	NAN	NANT	0	0.70	AA09
45	6w8d_F_DG442_DC443	NAN	NANT	0	0.61	AB04
46	6w8d_F_DC443_DA444	NAN	NANT	0	0.87	OP24
47	6w8d_F_DA444_DT445	miB	BB15	51	0.34	BB15
48	6w8d_F_DT445_DG446	miB	BB10	38	0.40	BB10

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

Show

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 Summary/Torsions/Similar/... tabs for more details.
Center view on step or molecule.
Show reference and contacts	model altloc