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Conformers: ABBIImiBZICOPNSYNN
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Crystal Structure of the Hepatitis Delta Virus Gemonic Ribozyme Precursor, with C75U mutaion, in Ba2+ solution

Results of the assignment of 72 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
011vbz_B_U100_G101NANNANT02.46 OP01
021vbz_B_G101_G102NANNANT00.60 AA08
031vbz_B_G102_C103AAAAA00550.35 AA00
041vbz_B_C103_C104AAAAA00430.29 AA00
051vbz_B_C104_G105AAAAA00860.14 AA00
061vbz_B_G105_G106AAAAA00300.38 AA00
071vbz_B_G106_C107AAAAA00650.26 AA00
081vbz_B_C107_A108AAAAA00770.28 AA00
091vbz_B_A108_U109AAAAA00810.21 AA00
101vbz_B_U109_G110NANNANT00.77 OP29
111vbz_B_G110_G111AAAAA00500.28 AA00
121vbz_B_G111_U112AAAAA00760.22 AA00
131vbz_B_U112_C113AAwAA10500.29 AA10
141vbz_B_C113_C114AAAAA00590.30 AA00
151vbz_B_C114_C115AAAAA00830.17 AA00
161vbz_B_C115_A116AAAAA00850.22 AA00
171vbz_B_A116_G117AAAAA00920.18 AA00
181vbz_B_G117_C118AAAAA00830.27 AA00
191vbz_B_C118_C119AAAAA00850.19 AA00
201vbz_B_C119_U120A-BAB05760.23 AB05
211vbz_B_U120_C121OPNOP14440.43 OP14
221vbz_B_C121_C122AAwAA01580.39 AA01
231vbz_B_C122_U123NANNANT02.13 OP27
241vbz_B_U123_C124NANNANT01.26 OP31
251vbz_B_C124_G125NANNANT01.17 BA16
261vbz_B_G125_C126NANNANT01.37 OP24
271vbz_B_C126_U127NANNANT00.84 OP30
281vbz_B_U127_G128NANNANT01.28 OP31
291vbz_B_G128_G129AAAAA00650.28 AA00
301vbz_B_G129_C130AAAAA00610.18 AA00
311vbz_B_C130_G131NANNANT00.98 OP31
321vbz_B_G131_C132AAAAA00250.29 AA00
331vbz_B_C132_C133AAAAA00700.28 AA00
341vbz_B_C133_G134AAAAA00600.32 AA00
351vbz_B_G134_G135AAAAA00900.17 AA00
361vbz_B_G135_C136AAAAA00410.28 AA00
371vbz_B_C136_U137AAAAA00890.22 AA00
381vbz_B_U137_G138AAuAA12720.16 AA12
391vbz_B_G138_G139AAAAA00860.25 AA00
401vbz_B_G139_G140AAAAA00900.18 AA00
411vbz_B_G140_C141NANNANT00.67 BB13
421vbz_B_C141_A142NANNANT00.49 OP26
431vbz_B_A142_A143AAAAA00760.11 AA00
441vbz_B_A143_C144AAAAA00730.23 AA00
451vbz_B_C144_A145AAAAA00870.11 AA00
461vbz_B_A145_C146AAAAA00830.16 AA00
471vbz_B_C146_C147AAAAA00920.17 AA00
481vbz_B_C147_A148AAAAA00760.23 AA00
491vbz_B_A148_U149AAAAA00910.23 AA00
501vbz_B_U149_U150ICLIC02920.11 IC02
511vbz_B_U150_G151ZZZZZ02370.66 ZZ02
521vbz_B_G151_C152NANNANT00.83 IC02
531vbz_B_C152_A153NANNANT00.96 AA12
541vbz_B_A153_C154AAAAA00720.22 AA00
551vbz_B_C154_U155NANNANT00.57 OP21
561vbz_B_U155_C156NANNANT00.45 OP26
571vbz_B_C156_C157AAAAA00730.24 AA00
581vbz_B_C157_G158NANNANT01.50 OP11
591vbz_B_G158_G159AAAAA08800.16 AA08
601vbz_B_G159_U160AAAAA08850.18 AA08
611vbz_B_U160_G161AAAAA00970.17 AA00
621vbz_B_G161_G162AAAAA00490.31 AA00
631vbz_B_G162_U163NANNANT01.68 AA13
641vbz_B_U163_G164NANNANT01.98 OP14
651vbz_B_G164_A165NANNANT01.74 OP16
661vbz_B_A165_A166AAAAA09340.33 AA09
671vbz_B_A166_U167NANNANT00.71 IC07
681vbz_B_U167_G168AAwAA01390.35 AA01
691vbz_B_G168_G169AAAAA08890.18 AA08
701vbz_B_G169_G170AAAAA00820.14 AA00
711vbz_B_G170_A171AAAAA00730.24 AA00
721vbz_B_A171_C172AAwAA01470.27 AA01

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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