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Conformers: ABBIImiBZICOPNSYNN
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Substrate RNA Positioning in the Archaeal H/ACA Ribonucleoprotein Complex

Results of the assignment of 58 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 viewer for analysis of results. Click column headers to sort data.
Define restraints for steps within Å cartesian RMSD, global sigma scaling factor or use per step sigma scaling.
step numberStep nameCANANtCconfalrmsd
012rfk_D_G1_G2AAAAA00430.25 AA00
022rfk_D_G2_G3AAwAA06660.20 AA06
032rfk_D_G3_C4AAAAA08680.18 AA08
042rfk_D_C4_U5AAAAA04320.34 AA04
052rfk_D_U5_C6AAAAA08700.22 AA08
062rfk_D_C6_C7AAAAA00910.12 AA00
072rfk_D_C7_G8NANNANT00.39 AA10
082rfk_D_G8_G9AAAAA08320.46 AA08
092rfk_D_G9_A10NANNANT00.98 OP01
102rfk_D_A10_A11AAAAA00820.18 AA00
112rfk_D_A11_A12NANNANT00.49 AA06
122rfk_D_A12_C13NANNANT00.40 AA10
132rfk_D_C13_C14AAAAA08160.47 AA08
142rfk_D_C14_G15NANNANT00.46 AA04
152rfk_D_G15_C16AAAAA08810.25 AA08
162rfk_D_C16_G17AAAAA08560.19 AA08
172rfk_D_G17_G18AAAAA03730.21 AA03
182rfk_D_G18_C19AAAAA00760.20 AA00
192rfk_D_C19_G20AAAAA08750.15 AA08
202rfk_D_G20_C21AAwAA01450.33 AA01
212rfk_E_G1_C2AAAAA00690.16 AA00
222rfk_E_C2_G3AAAAA00760.19 AA00
232rfk_E_G3_C4AAAAA00920.18 AA00
242rfk_E_C4_U5AAAAA00170.26 AA00
252rfk_E_U5_U6NANNANT00.36 OP01
262rfk_E_U6_C7OPNOP26540.46 OP26
272rfk_E_C7_G8AAwAA05540.16 AA05
282rfk_E_G8_C9AAAAA08500.29 AA08
292rfk_E_C9_U10AAAAA08780.22 AA08
302rfk_E_U10_C11AAAAA00390.36 AA00
312rfk_E_C11_C12NANNANT00.35 AA06
322rfk_E_C12_C13AAAAA08320.25 AA08
332rfk_E_C13_G14AAAAA00610.27 AA00
342rfk_E_G14_G15NANNANT00.35 AA10
352rfk_E_G15_A16AAAAA08390.35 AA08
362rfk_E_A16_G17AAAAA00850.11 AA00
372rfk_E_G17_C18AAwAA01110.35 AA01
382rfk_E_C18_C19NANNANT00.53 AA04
392rfk_E_C19_C20AAAAA08590.21 AA08
402rfk_E_C20_A21NANNANT00.42 ZZ2S
412rfk_E_A21_C22NANNANT00.85 OPS1
422rfk_E_C22_A23NANNANT00.57 ZZ1S
432rfk_E_A23_C24NANNANT00.91 OP16
442rfk_E_C24_U25NANNANT01.74 OP03
452rfk_E_U25_A26NANNANT01.75 IC03
462rfk_F_G4_G5NANNANT01.74 OP17
472rfk_F_G5_A6AAuAA12610.43 AA12
482rfk_F_A6_G7AAAAA00760.16 AA00
492rfk_F_G7_C8AAAAA00850.19 AA00
502rfk_F_C8_G9ZZZZZ01600.25 ZZ01
512rfk_F_G9_U10NANNANT00.96 OP18
522rfk_F_U10_G11NANNANT00.36 OP24
532rfk_F_G11_C12AAAAA08630.25 AA08
542rfk_F_C12_G13AAAAA04160.41 AA04
552rfk_F_G13_G14AAAAA08110.50 AA08
562rfk_F_G14_U15AAAAA08590.37 AA08
572rfk_F_U15_U16NANNANT00.66 AA01
582rfk_F_U16_U17NANNANT00.87 IC04

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.
Best NtC fitted to input structure.

Restraints

Restraints file for REFMAC (steps with RMSD <= 0.5Å)
Commands file for MMB (steps with RMSD <= 0.5Å)
Restraints file for Phenix (steps with RMSD <= 0.5Å) [?]

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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