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

©Jiří Černý & Bohdan Schneider

RNA Polymerase II Initiation Complex with a 5-nt RNA

Results of the assignment of 11 detected steps in 1 model(s), can be also downloaded as csv or json file. Average confal 0, percentile 0.

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Click a row in table or a step in JSmol for analysis of results. Click column headers to sort data.
step numberStep nameCANANtCconfalrmsd
013rzd_R_A6_G7NANNANT00.73AA06
023rzd_R_G7_A8AAAAA08670.28AA08
033rzd_R_A8_G9AAAAA00690.24AA00
043rzd_R_G9_G10AAAAA00830.13AA00
053rzd_T_DC16_DG17NANNANT00.82IC04
063rzd_T_DG17_DA18NANNANT00.49AB1S
073rzd_T_DA18_DT19NANNANT00.82OP06
083rzd_T_DT19_DC20AAAAA00800.22AA00
093rzd_T_DC20_DC21AAAAA00760.24AA00
103rzd_T_DC21_DT22NANNANT00.53AA10
113rzd_T_DT22_DC23NANNANT00.84IC03

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).

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