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

Elongation complex of RNA polymerase II with a hepatitis delta virus-derived RNA stem loop

Results of the assignment of 12 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
012r93_R_U1_G2AAAAA08630.43AA08
022r93_R_G2_A3AAAAA00690.22AA00
032r93_R_A3_U4AAAAA00760.19AA00
042r93_R_U4_U5AAAAA08520.35AA08
052r93_R_U5_C6AAwAA11260.47AA11
062r93_R_C6_U7NANNANT00.63AA03
072r93_R_C12_G13AAAAA04440.38AA04
082r93_R_G13_G14AAAAA04860.22AA04
092r93_R_G14_A15AAAAA00580.26AA00
102r93_R_A15_A16AAAAA08730.28AA08
112r93_R_A16_U17AAAAA03900.21AA03
122r93_R_U17_C18AAAAA00470.35AA00

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