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Conformers: ABBIImiBZICOPNSYNN
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Crystal structure of NAD-II riboswitch (single strand) with NAD

Results of the assignment of 94 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
018hba_A_G1_C2AAAAA04850.20 AA04
028hba_A_C2_G3AAAAA08640.15 AA08
038hba_A_G3_G4AAAAA00560.19 AA00
048hba_A_G4_C5AAAAA08680.27 AA08
058hba_A_C5_G6NANNANT00.51 IC03
068hba_A_G6_U7NANNANT00.67 OP26
078hba_A_U7_U8AAAAA00730.20 AA00
088hba_A_U8_G9NANNANT01.48 OP02
098hba_A_G9_C10NANNANT00.65 OP21
108hba_A_C10_G11NANNANT01.00 AA07
118hba_A_G11_U12NANNANT00.69 AA04
128hba_A_U12_C13AAAAA00670.18 AA00
138hba_A_C13_C14AAwAA10920.22 AA10
148hba_A_C14_G15AAAAA08540.37 AA08
158hba_A_G15_A16NANNANT00.94 OP21
168hba_A_A16_A17OPNOP12250.67 OP12
178hba_A_A17_A18AAAAA00550.34 AA00
188hba_A_A18_G19NANNANT00.50 AA10
198hba_A_G19_U20AAAAA08860.18 AA08
208hba_A_G28_A29NANNANT00.38 AA04
218hba_A_A29_C30AAAAA00900.14 AA00
228hba_A_C30_A31NANNANT00.75 IC07
238hba_A_A31_C32AAAAA00450.35 AA00
248hba_A_C32_G33AAuAA07870.23 AA07
258hba_A_G33_G34AAAAA00450.41 AA00
268hba_A_G34_C35AAAAA04810.23 AA04
278hba_A_C35_C36AAAAA08840.17 AA08
288hba_A_C36_G37AAAAA00890.17 AA00
298hba_A_G37_C38NANNANT00.46 AA04
308hba_A_C38_U39NANNANT00.92 OP26
318hba_A_U39_U40NANNANT01.35 OP19
328hba_A_U40_A41NANNANT00.56 AB01
338hba_A_A41_A42NANNANT00.89 OP24
348hba_A_A42_A43AAAAA04760.40 AA04
358hba_A_A43_A44NANNANT00.92 OP08
368hba_A_A44_A45NANNANT00.60 AA06
378hba_A_A45_C46AAAAA00140.41 AA00
388hba_A_C46_A47NANNANT00.81 AA01
398hba_A_A47_A48ICLIC01570.47 IC01
408hba_A_A48_A49NANNANT01.27 OP21
418hba_A_A49_A50NANNANT02.14 OP10
428hba_A_A50_G51AAuAA12800.33 AA12
438hba_A_G51_G52AAAAA00570.27 AA00
448hba_A_G52_A53AAAAA00670.16 AA00
458hba_A_A53_G54AAAAA08700.22 AA08
468hba_A_G54_A55AAAAA08360.47 AA08
478hba_B_C0_G1NANNANT00.97 AAS1
488hba_B_G1_C2AAAAA04870.19 AA04
498hba_B_C2_G3AAAAA08690.14 AA08
508hba_B_G3_G4AAAAA08660.27 AA08
518hba_B_G4_C5AAAAA08710.27 AA08
528hba_B_C5_G6NANNANT00.51 IC03
538hba_B_G6_U7NANNANT00.66 OP26
548hba_B_U7_U8AAAAA00590.21 AA00
558hba_B_U8_G9NANNANT01.37 OP28
568hba_B_G9_C10OPNOP21270.62 OP21
578hba_B_C10_G11NANNANT01.30 OP13
588hba_B_G11_U12NANNANT01.50 OP29
598hba_B_U12_C13AAAAA00680.19 AA00
608hba_B_C13_C14AAwAA10880.23 AA10
618hba_B_C14_G15AAAAA08500.38 AA08
628hba_B_G15_A16NANNANT00.92 OP21
638hba_B_A16_A17OPNOP12150.67 OP12
648hba_B_A17_A18AAAAA00470.35 AA00
658hba_B_A18_G19NANNANT00.49 AA10
668hba_B_G19_U20AAAAA08910.18 AA08
678hba_B_U20_C21AAAAA08970.15 AA08
688hba_B_G28_A29NANNANT00.37 AA04
698hba_B_A29_C30AAAAA00900.12 AA00
708hba_B_C30_A31NANNANT00.77 IC07
718hba_B_A31_C32AAAAA00520.33 AA00
728hba_B_C32_G33AAuAA07840.23 AA07
738hba_B_G33_G34AAAAA00440.40 AA00
748hba_B_G34_C35AAAAA04800.23 AA04
758hba_B_C35_C36AAAAA08820.17 AA08
768hba_B_C36_G37AAAAA00860.16 AA00
778hba_B_G37_C38NANNANT00.46 AA04
788hba_B_C38_U39NANNANT00.93 OP26
798hba_B_U39_U40NANNANT01.44 OP19
808hba_B_U40_A41NANNANT00.68 AB01
818hba_B_A41_A42NANNANT00.89 OP24
828hba_B_A42_A43AAAAA04640.47 AA04
838hba_B_A43_A44NANNANT00.83 AA08
848hba_B_A44_A45NANNANT00.54 AA06
858hba_B_A45_C46AAAAA00150.40 AA00
868hba_B_C46_A47NANNANT00.80 AA01
878hba_B_A47_A48ICLIC01480.49 IC01
888hba_B_A48_A49NANNANT01.28 OP21
898hba_B_A49_A50NANNANT01.74 OP01
908hba_B_A50_G51AAuAA12800.34 AA12
918hba_B_G51_G52AAAAA00580.27 AA00
928hba_B_G52_A53AAAAA00670.17 AA00
938hba_B_A53_G54AAAAA08660.21 AA08
948hba_B_G54_A55AAAAA08410.44 AA08

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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