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

Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.

©Jiří Černý & Bohdan Schneider

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.

Your browser does not support the HTML5 canvas tag.
Your browser does not support the HTML5 canvas tag.
Click a row in table or a step in JSmol for analysis of results. Click column headers to sort data.
step numberStep nameCANANtCconfalrmsd
012ez6_C_A1_A2AAAAA00710.18AA00
022ez6_C_A2_A3AAAAA00800.19AA00
032ez6_C_A3_G4AAAAA00900.12AA00
042ez6_C_G4_G5AAAAA00940.14AA00
052ez6_C_G5_U6AAAAA00690.24AA00
062ez6_C_U6_C7AAAAA00720.24AA00
072ez6_C_C7_A8AAAAA00950.15AA00
082ez6_C_A8_U9AAAAA00750.20AA00
092ez6_C_U9_U10AAAAA00920.16AA00
102ez6_C_U10_C11AAAAA00860.20AA00
112ez6_C_C11_G12AAAAA00690.32AA00
122ez6_C_G12_C13NANNANT02.00OP17
132ez6_C_C13_A14AAAAA08620.53AA08
142ez6_C_A14_A15AAAAA00550.32AA00
152ez6_C_A15_G16AAAAA08160.68AA08
162ez6_C_G16_A17AAAAA00840.22AA00
172ez6_C_A17_G18AAAAA00870.18AA00
182ez6_C_G18_U19AAAAA00930.17AA00
192ez6_C_U19_G20AAAAA00860.11AA00
202ez6_C_G20_G21AAAAA00700.25AA00
212ez6_C_G21_C22AAAAA00890.22AA00
222ez6_C_C22_C23AAAAA00950.12AA00
232ez6_C_C23_U24AAAAA00870.16AA00
242ez6_C_U24_U25AAAAA00800.18AA00
252ez6_C_U25_U26AAAAA00960.18AA00
262ez6_C_U26_A27AAAAA00940.15AA00
272ez6_C_A27_U28AAAAA00900.15AA00
282ez6_D_A1_A2AAAAA00740.18AA00
292ez6_D_A2_A3AAAAA00790.16AA00
302ez6_D_A3_G4AAAAA00920.10AA00
312ez6_D_G4_G5AAAAA00940.11AA00
322ez6_D_G5_U6AAAAA00850.22AA00
332ez6_D_U6_C7AAAAA00750.23AA00
342ez6_D_C7_A8AAAAA00930.13AA00
352ez6_D_A8_U9AAAAA00860.18AA00
362ez6_D_U9_U10AAAAA00880.15AA00
372ez6_D_U10_C11AAAAA00820.21AA00
382ez6_D_C11_G12AAAAA00780.29AA00
392ez6_D_G12_C13OPNOP03850.09OP03
402ez6_D_C13_A14AAAAA08720.36AA08
412ez6_D_A14_A15AAAAA00740.25AA00
422ez6_D_A15_G16AAAAA08320.63AA08
432ez6_D_G16_A17AAAAA00910.18AA00
442ez6_D_A17_G18AAAAA00750.15AA00
452ez6_D_G18_U19AAAAA00930.15AA00
462ez6_D_U19_G20AAAAA00920.10AA00
472ez6_D_G20_G21AAAAA00720.25AA00
482ez6_D_G21_C22AAAAA00920.19AA00
492ez6_D_C22_C23AAAAA00900.15AA00
502ez6_D_C23_U24AAAAA00910.19AA00
512ez6_D_U24_U25AAAAA00830.19AA00
522ez6_D_U25_U26AAAAA00770.17AA00
532ez6_D_U26_A27AAAAA00770.15AA00
542ez6_D_A27_U28AAAAA08870.13AA08

Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.
Definition of torsion angles
step:
Table of conformers

δ1ε1ζ1α2β2γ2δ2χ1χ2μNNCC
step_torsions
ntC_average
Δ torsions
torsion scores

commentsstep 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

Return up to random steps in PDB structures ( include large structures )

Show



Color by conformation group (pyramids)

group
visible

Color by NtC (balls)

A

A-B

B-A

B

IC

OPN

Z

N