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Conformers: ABBIImiBZICOPNSYNN
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Crystal Structure of substrate-bound halfmer box C/D RNP

Results of the assignment of 89 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
013nmu_D_G1_C2AAAAA00760.20 AA00
023nmu_D_C2_C3AAAAA09520.48 AA09
033nmu_D_C3_G4AAAAA08170.29 AA08
043nmu_D_G4_U5AAuAA12330.54 AA12
053nmu_D_U5_U6AAAAA08260.72 AA08
063nmu_D_U6_G7AAAAA09380.22 AA09
073nmu_D_G7_A8NANNANT00.78 AA08
083nmu_D_A8_A9AAAAA08660.31 AA08
093nmu_D_A9_G10AAAAA04550.34 AA04
103nmu_D_G10_C11AAAAA04900.23 AA04
113nmu_D_C11_U12NANNANT00.60 AA11
123nmu_D_U12_C13NANNANT01.06 OP17
133nmu_D_C13_U14AAAAA08860.32 AA08
143nmu_D_U14_G15A-BAB05540.49 AB05
153nmu_D_G15_A16OPNOP22120.63 OP22
163nmu_D_A16_C17OPNOP24600.36 OP24
173nmu_D_C17_C18AAwAA1080.42 AA10
183nmu_D_C18_G19NANNANT00.67 AA10
193nmu_D_G19_A20NANNANT00.72 OP04
203nmu_D_A20_A21AAwAA10100.46 AA10
213nmu_D_A21_A22AAAAA00300.35 AA00
223nmu_D_A22_G23AAwAA05860.15 AA05
233nmu_D_G23_G24AAAAA00660.21 AA00
243nmu_D_G24_C25AAAAA00540.37 AA00
253nmu_D_C25_G26NANNANT00.93 BB2S
263nmu_D_G26_U27NANNANT00.58 OP21
273nmu_D_U27_G28NANNANT00.66 OP20
283nmu_D_G28_A29OPNOP10570.30 OP10
293nmu_D_A29_U30AAAAA00390.40 AA00
303nmu_D_U30_G31AAAAA08780.23 AA08
313nmu_D_G31_A32NANNANT00.46 AB2S
323nmu_D_A32_G33NANNANT02.24 IC03
333nmu_D_G33_C34NANNANT01.27 OP17
343nmu_E_G1_C2AAAAA08740.38 AA08
353nmu_E_C2_C3AAAAA03650.30 AA03
363nmu_E_C3_G4AAAAA08380.27 AA08
373nmu_E_G4_U5AAAAA00690.41 AA00
383nmu_E_U5_U6NANNANT00.64 AA01
393nmu_E_U6_G7AAAAA09230.44 AA09
403nmu_E_G7_A8AAuAA12330.33 AA12
413nmu_E_A8_A9AAAAA08140.56 AA08
423nmu_E_A9_G10NANNANT00.60 AA08
433nmu_E_G10_C11NANNANT00.58 AB04
443nmu_E_C11_U12NANNANT02.23 OP16
453nmu_E_U12_C13NANNANT01.84 OP27
463nmu_E_C13_U14AAAAA00750.37 AA00
473nmu_E_U14_G15A-BAB05580.52 AB05
483nmu_E_G15_A16NANNANT00.83 OP22
493nmu_E_A16_C17OPNOP24850.22 OP24
503nmu_E_C17_C18AAAAA00410.17 AA00
513nmu_E_C18_G19AAAAA00800.21 AA00
523nmu_E_G19_A20OPNOP04480.26 OP04
533nmu_E_A20_A21AAwAA05410.53 AA05
543nmu_E_A21_A22AAAAA08510.31 AA08
553nmu_E_A22_G23AAwAA05830.18 AA05
563nmu_E_G23_G24AAAAA00850.20 AA00
573nmu_E_G24_C25AAAAA00430.43 AA00
583nmu_E_C25_G26NANNANT00.96 BB2S
593nmu_E_G26_U27NANNANT00.47 OP21
603nmu_E_U27_G28OPNOP20400.65 OP20
613nmu_E_G28_A29NANNANT00.55 OP26
623nmu_E_A29_U30AAAAA00380.36 AA00
633nmu_E_U30_G31AAAAA00720.15 AA00
643nmu_E_G31_A32NANNANT00.54 AB2S
653nmu_E_A32_G33NANNANT01.90 OP17
663nmu_E_G33_C34NANNANT01.35 OP17
673nmu_I_G1_A2NANNANT00.54 OPS1
683nmu_I_A2_G3AAAAA08400.45 AA08
693nmu_I_G3_C4AAAAA08510.43 AA08
703nmu_I_C4_U5AAAAA00570.26 AA00
713nmu_I_U5_U6AAAAA08580.34 AA08
723nmu_I_U6_C7NANNANT00.54 AA04
733nmu_I_C7_A8NANNANT01.04 AA01
743nmu_I_A8_A9NANNANT00.54 AA04
753nmu_I_A9_C10AAAAA08170.39 AA08
763nmu_I_C10_G11AAuAA12230.53 AA12
773nmu_I_G11_G12AAAAA08690.40 AA08
783nmu_I_G12_C13AAuAA12430.38 AA12
793nmu_K_A2_G3NANNANT00.65 AA04
803nmu_K_G3_C4AAAAA00490.24 AA00
813nmu_K_C4_U5AAAAA00760.24 AA00
823nmu_K_U5_U6AAAAA00590.22 AA00
833nmu_K_U6_C7AAwAA10600.21 AA10
843nmu_K_C7_A8AAAAA08600.29 AA08
853nmu_K_A8_A9AAAAA08600.46 AA08
863nmu_K_A9_C10AAAAA00590.24 AA00
873nmu_K_C10_G11AAAAA04560.33 AA04
883nmu_K_G11_G12AAAAA08640.40 AA08
893nmu_K_G12_C13AAuAA12500.22 AA12

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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