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

©Jiří Černý & Bohdan Schneider

Structural descriptions of ligand interactions to DNA and RNA quadruplexes folded from the non-coding region of Pseudorabies virus

Results of the assignment of 28 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
016xrq_B_G1_G2NANNANT00.48ZZS2
026xrq_B_G2_C3NANNANT00.56OP20
036xrq_B_C3_U4NANNANT00.64OP21
046xrq_B_U4_C5NANNANT00.90OP14
056xrq_B_C5_G6NANNANT00.40ZZ1S
066xrq_B_G6_G.A7NANNANT00.21ZZS1
076xrq_B_G6_G.B7NANNANT00.34ZZS2
086xrq_B_G.A7_C8NANNANT00.96OP13
096xrq_B_G.B7_C8NANNANT01.01OP13
106xrq_B_C8_G9NANNANT01.26OP06
116xrq_B_G9_G10B12BB04660.36BB04
126xrq_B_G10_C11NANNANT01.60OP17
136xrq_B_C11_G12OPNOP29140.53OP29
146xrq_B_G12_G13A-BAB05430.25AB05
156xrq_B_G13_A14NANNANT01.25OP20
166xrq_A_G1_G2ZZZZZS2230.41ZZS2
176xrq_A_G2_C3OPNOP20390.34OP20
186xrq_A_C3_U4NANNANT00.37OP21
196xrq_A_U4_C5NANNANT01.03OP13
206xrq_A_C5_G6NANNANT00.45ZZ1S
216xrq_A_G6_G7NANNANT00.29ZZS1
226xrq_A_G7_C8NANNANT01.02OP13
236xrq_A_C8_G9NANNANT01.15OP06
246xrq_A_G9_G10B12BB04710.23BB04
256xrq_A_G10_C11NANNANT01.46OP21
266xrq_A_C11_G12NANNANT00.82OP11
276xrq_A_G12_G13AAAAA00680.27AA00
286xrq_A_G13_A14NANNANT01.54IC04

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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