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Conformers: ABBIImiBZICOPNSYNN
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Crystal Structure of the Wild Type Hepatitis Delta Virus Gemonic Ribozyme Precursor, in EDTA solution

Results of the assignment of 68 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
011vc5_B_G101_G102AAAAA04530.38 AA04
021vc5_B_G102_C103AAAAA00740.23 AA00
031vc5_B_C103_C104AAAAA00780.27 AA00
041vc5_B_C104_G105AAAAA08880.13 AA08
051vc5_B_G105_G106AAAAA00820.17 AA00
061vc5_B_G106_C107AAAAA00380.33 AA00
071vc5_B_C107_A108AAAAA00830.23 AA00
081vc5_B_A108_U109AAAAA00820.30 AA00
091vc5_B_U109_G110NANNANT01.20 OP17
101vc5_B_G110_G111AAAAA08600.33 AA08
111vc5_B_G111_U112AAuAA12320.37 AA12
121vc5_B_U112_C113AAwAA01570.27 AA01
131vc5_B_C113_C114AAAAA00320.36 AA00
141vc5_B_C114_C115AAAAA00690.27 AA00
151vc5_B_C115_A116AAAAA08710.28 AA08
161vc5_B_A116_G117AAAAA00530.29 AA00
171vc5_B_G117_C118AAAAA00720.24 AA00
181vc5_B_C118_C119AAAAA00810.27 AA00
191vc5_B_C119_U120A-BAB05180.22 AB05
201vc5_B_U120_C121NANNANT00.42 OP14
211vc5_B_C121_C122AAwAA06660.49 AA06
221vc5_B_C122_U123NANNANT01.74 OP05
231vc5_B_U123_C124NANNANT00.81 OP12
241vc5_B_U127_G128NANNANT01.70 OP17
251vc5_B_G128_G129AAAAA00500.35 AA00
261vc5_B_G129_C130AAAAA00710.28 AA00
271vc5_B_C130_G131OPNOP30220.22 OP30
281vc5_B_G131_C132AAAAA00530.29 AA00
291vc5_B_C132_C133AAAAA00870.25 AA00
301vc5_B_C133_G134AAAAA00680.21 AA00
311vc5_B_G134_G135AAwAA06700.24 AA06
321vc5_B_G135_C136AAAAA00500.28 AA00
331vc5_B_C136_U137AAAAA00760.31 AA00
341vc5_B_U137_G138NANNANT00.51 AA03
351vc5_B_G138_G139NANNANT00.55 AB02
361vc5_B_G139_G140AAAAA00800.18 AA00
371vc5_B_G140_C141NANNANT01.04 OP08
381vc5_B_C141_A142NANNANT00.54 OP26
391vc5_B_A142_A143AAAAA00780.15 AA00
401vc5_B_A143_C144AAAAA00530.31 AA00
411vc5_B_C144_A145AAAAA00740.21 AA00
421vc5_B_A145_C146AAAAA08900.18 AA08
431vc5_B_C146_C147AAAAA00700.25 AA00
441vc5_B_C147_A148AAAAA00780.25 AA00
451vc5_B_A148_U149AAAAA08850.20 AA08
461vc5_B_U149_U150NANNANT00.32 IC02
471vc5_B_U150_G151NANNANT00.49 ZZ02
481vc5_B_G151_C152NANNANT00.79 IC02
491vc5_B_C152_A153NANNANT01.11 AB02
501vc5_B_A153_C154AAAAA00840.17 AA00
511vc5_B_C154_U155NANNANT02.03 OP06
521vc5_B_U155_C156NANNANT00.55 OP26
531vc5_B_C156_C157AAAAA00680.27 AA00
541vc5_B_C157_G158NANNANT01.52 OP17
551vc5_B_G158_G159AAAAA08870.15 AA08
561vc5_B_G159_U160AAAAA00810.16 AA00
571vc5_B_U160_G161AAAAA00520.29 AA00
581vc5_B_G161_G162AAAAA08760.31 AA08
591vc5_B_G162_C163NANNANT02.13 OP06
601vc5_B_C163_G164NANNANT01.88 OP14
611vc5_B_G164_A165NANNANT01.40 OP13
621vc5_B_A165_A166AAAAA08100.51 AA08
631vc5_B_A166_U167NANNANT01.53 IC03
641vc5_B_U167_G168AAwAA01370.52 AA01
651vc5_B_G168_G169AAAAA00830.17 AA00
661vc5_B_G169_G170AAAAA08640.25 AA08
671vc5_B_G170_A171AAAAA00480.26 AA00
681vc5_B_A171_C172AAwAA06760.43 AA06

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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