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

©Jiří Černý & Bohdan Schneider

RNA kink-turn motif with pyrrolo cytosine

Results of the assignment of 36 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
017ei9_A_G1_G2AAAAA00610.20AA00
027ei9_A_G2_C3AAAAA08740.22AA08
037ei9_A_C3_G4AAAAA00660.24AA00
047ei9_A_G4_A5NANNANT01.15BB2S
057ei9_A_A5_4PC6NANNANT00.68OP21
067ei9_A_4PC6_G7NANNANT00.61OP20
077ei9_A_G7_A8NANNANT00.71OP26
087ei9_A_A8_A9AAAAA08820.18AA08
097ei9_A_A9_C10AAAAA08150.45AA08
107ei9_A_C10_C11AAAAA00680.22AA00
117ei9_A_C11_G12AAAAA00570.16AA00
127ei9_A_G12_G13AAAAA00430.17AA00
137ei9_A_G13_G14AAAAA08490.56AA08
147ei9_A_G14_G15NANNANT00.64AA11
157ei9_A_G15_A16NANNANT00.65IC05
167ei9_A_A16_G17OPNOP24540.32OP24
177ei9_A_G17_C18AAAAA00540.26AA00
187ei9_A_C18_C19AAAAA00840.21AA00
197ei9_B_G1_G2AAAAA00670.14AA00
207ei9_B_G2_C3AAAAA00810.21AA00
217ei9_B_C3_G4AAAAA00690.27AA00
227ei9_B_G4_A5NANNANT01.03BB2S
237ei9_B_A5_4PC6NANNANT00.61OP21
247ei9_B_4PC6_G7NANNANT00.60OP20
257ei9_B_G7_A8OPNOP10650.21OP10
267ei9_B_A8_A9AAAAA00750.23AA00
277ei9_B_A9_C10AAAAA08160.49AA08
287ei9_B_C10_C11AAAAA00750.14AA00
297ei9_B_C11_G12AAAAA00620.17AA00
307ei9_B_G12_G13AAAAA08720.27AA08
317ei9_B_G13_G14AAAAA08560.53AA08
327ei9_B_G14_G15NANNANT00.58AA11
337ei9_B_G15_A16NANNANT00.84OP22
347ei9_B_A16_G17NANNANT00.98BA13
357ei9_B_G17_C18AAAAA00370.30AA00
367ei9_B_C18_C19AAAAA00830.25AA00

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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