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Conformers: ABBIImiBZICOPNSYNN
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THREE-DIMENSIONAL STRUCTURE OF A HAMMERHEAD RIBOZYME

Results of the assignment of 135 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
0011hmh_A_C21_C30AAAAA00790.28 AA00
0021hmh_A_G21.L_A22.LOPNOP04530.28 OP04
0031hmh_A_A22.L_A23.LAAAAA08690.30 AA08
0041hmh_A_C22_C21AAAAA00960.14 AA00
0051hmh_A_A23.L_A24.LAAAAA00140.33 AA00
0061hmh_A_A23_C22AAAAA00580.24 AA00
0071hmh_A_A24.L_G114AAAAA08350.69 AA08
0081hmh_A_G24_A23AAAAA00920.18 AA00
0091hmh_A_C25_G24AAAAA00540.31 AA00
0101hmh_A_G26_C25AAAAA00870.29 AA00
0111hmh_A_G27_G26AAAAA00850.23 AA00
0121hmh_A_C30_U40AAAAA00950.11 AA00
0131hmh_A_U40_G50OPNOP04660.13 OP04
0141hmh_A_G50_A60AAAAA00420.37 AA00
0151hmh_A_A60_U70NANNANT00.52 OP01
0161hmh_A_U70_G80A-BAB05420.43 AB05
0171hmh_A_G80_A90OPNOP10500.20 OP10
0181hmh_A_A90_G101AAAAA04290.63 AA04
0191hmh_A_G101_G102AAAAA00880.22 AA00
0201hmh_A_G102_C103AAAAA00540.23 AA00
0211hmh_A_C103_C104AAAAA00530.26 AA00
0221hmh_A_C104_G21.LAAAAA00800.30 AA00
0231hmh_A_C111_G120AAAAA00200.52 AA00
0241hmh_A_C112_C111AAAAA00720.22 AA00
0251hmh_A_G113_C112AAAAA00880.21 AA00
0261hmh_A_G114_G113AAAAA00820.18 AA00
0271hmh_A_G120_A130AAuAA12740.38 AA12
0281hmh_A_A130_A140AAAAA00380.47 AA00
0291hmh_A_A140_A151AAAAA00870.09 AA00
0301hmh_A_A151_C152AAAAA00450.35 AA00
0311hmh_A_C152_C153AAAAA00870.13 AA00
0321hmh_A_C153_G154AAAAA00790.18 AA00
0331hmh_A_G154_U155AAAAA00850.17 AA00
0341hmh_B_DG11_DG12AAAAA00860.41 AA00
0351hmh_B_DG12_DT13AAAAA00610.37 AA00
0361hmh_B_DT13_DC14AAAAA00530.39 AA00
0371hmh_B_DC14_DG15AAAAA00390.44 AA00
0381hmh_B_DG15_DC16AAAAA04630.36 AA04
0391hmh_B_DC16_DC17AAAAA00220.43 AA00
0401hmh_B_DT161_DC170NANNANT00.56 OP16
0411hmh_B_DG162_DT161A-BAB01430.33 AB01
0421hmh_B_DG163_DG162AAAAA00870.20 AA00
0431hmh_B_DC164_DG163AAAAA00830.15 AA00
0441hmh_B_DA165_DC164AAAAA00900.18 AA00
0451hmh_B_DC170_DG11AAAAA00550.35 AA00
0461hmh_C_C21_C30AAAAA00340.43 AA00
0471hmh_C_G21.L_A22.LOPNOP04590.21 OP04
0481hmh_C_A22.L_A23.LAAAAA08650.29 AA08
0491hmh_C_C22_C21AAAAA00960.10 AA00
0501hmh_C_A23.L_A24.LAAAAA00300.28 AA00
0511hmh_C_A23_C22AAAAA00540.17 AA00
0521hmh_C_A24.L_G114AAAAA08130.88 AA08
0531hmh_C_G24_A23AAAAA00640.19 AA00
0541hmh_C_C25_G24AAAAA00970.18 AA00
0551hmh_C_G26_C25AAAAA00970.09 AA00
0561hmh_C_G27_G26AAAAA00870.09 AA00
0571hmh_C_C30_U40AAAAA00860.19 AA00
0581hmh_C_U40_G50OPNOP04710.10 OP04
0591hmh_C_G50_A60AAAAA00540.31 AA00
0601hmh_C_A60_U70OPNOP01700.46 OP01
0611hmh_C_U70_G80A-BAB05540.44 AB05
0621hmh_C_G80_A90OPNOP10250.27 OP10
0631hmh_C_A90_G101AAAAA08130.63 AA08
0641hmh_C_G101_G102AAAAA00680.25 AA00
0651hmh_C_G102_C103AAAAA00740.18 AA00
0661hmh_C_C103_C104AAAAA00890.17 AA00
0671hmh_C_C104_G21.LAAAAA00820.24 AA00
0681hmh_C_C111_G120AAAAA00320.43 AA00
0691hmh_C_C112_C111AAAAA00680.21 AA00
0701hmh_C_G113_C112AAwAA10880.12 AA10
0711hmh_C_G114_G113AAAAA00360.24 AA00
0721hmh_C_G120_A130AAuAA12780.39 AA12
0731hmh_C_A130_A140AAAAA00200.52 AA00
0741hmh_C_A140_A151AAAAA00720.11 AA00
0751hmh_C_A151_C152AAAAA00570.30 AA00
0761hmh_C_C152_C153AAAAA00620.16 AA00
0771hmh_C_C153_G154AAAAA00860.24 AA00
0781hmh_C_G154_U155AAAAA00860.27 AA00
0791hmh_D_DG11_DG12AAAAA04590.36 AA04
0801hmh_D_DG12_DT13AAAAA00640.29 AA00
0811hmh_D_DT13_DC14AAwAA10430.37 AA10
0821hmh_D_DC14_DG15AAAAA00700.18 AA00
0831hmh_D_DG15_DC16AAAAA00910.16 AA00
0841hmh_D_DC16_DC17AAAAA00110.33 AA00
0851hmh_D_DT161_DC170NANNANT00.89 OP10
0861hmh_D_DG162_DT161A-BAB01590.33 AB01
0871hmh_D_DG163_DG162AAAAA00250.26 AA00
0881hmh_D_DC164_DG163AAAAA00740.20 AA00
0891hmh_D_DA165_DC164AAAAA00690.24 AA00
0901hmh_D_DC170_DG11AAAAA08280.30 AA08
0911hmh_E_C21_C30AAAAA04670.32 AA04
0921hmh_E_G21.L_A22.LOPNOP04550.32 OP04
0931hmh_E_A22.L_A23.LAAAAA00370.40 AA00
0941hmh_E_C22_C21AAAAA00650.33 AA00
0951hmh_E_A23.L_A24.LAAAAA00500.27 AA00
0961hmh_E_A23_C22AAAAA00790.21 AA00
0971hmh_E_A24.L_G114NANNANT00.86 AA04
0981hmh_E_G24_A23AAAAA00830.13 AA00
0991hmh_E_C25_G24AAAAA00960.10 AA00
1001hmh_E_G26_C25AAAAA00930.20 AA00
1011hmh_E_G27_G26AAAAA00900.11 AA00
1021hmh_E_C30_U40AAAAA00800.12 AA00
1031hmh_E_U40_G50OPNOP04760.15 OP04
1041hmh_E_G50_A60AAAAA08460.28 AA08
1051hmh_E_A60_U70OPNOP01400.56 OP01
1061hmh_E_U70_G80A-BAB05220.44 AB05
1071hmh_E_G80_A90NANNANT00.24 OP10
1081hmh_E_A90_G101AAAAA08130.56 AA08
1091hmh_E_G101_G102AAAAA00670.22 AA00
1101hmh_E_G102_C103AAAAA00770.17 AA00
1111hmh_E_C103_C104AAAAA08790.27 AA08
1121hmh_E_C104_G21.LAAAAA00830.27 AA00
1131hmh_E_C111_G120AAAAA08650.41 AA08
1141hmh_E_C112_C111AAAAA00640.25 AA00
1151hmh_E_G113_C112AAAAA00780.24 AA00
1161hmh_E_G114_G113AAAAA00760.32 AA00
1171hmh_E_G120_A130AAuAA13880.21 AA13
1181hmh_E_A130_A140AAAAA00210.51 AA00
1191hmh_E_A140_A151AAAAA00840.22 AA00
1201hmh_E_A151_C152AAAAA00770.29 AA00
1211hmh_E_C152_C153AAAAA00620.18 AA00
1221hmh_E_C153_G154AAAAA00820.23 AA00
1231hmh_E_G154_U155AAAAA00760.20 AA00
1241hmh_F_DG11_DG12AAAAA00670.38 AA00
1251hmh_F_DG12_DT13AAAAA00840.27 AA00
1261hmh_F_DT13_DC14AAAAA00720.29 AA00
1271hmh_F_DC14_DG15AAAAA00700.23 AA00
1281hmh_F_DG15_DC16AAAAA00880.18 AA00
1291hmh_F_DC16_DC17AAAAA00470.29 AA00
1301hmh_F_DT161_DC170NANNANT00.67 OP10
1311hmh_F_DG162_DT161A-BAB01730.33 AB01
1321hmh_F_DG163_DG162AAAAA00300.43 AA00
1331hmh_F_DC164_DG163AAAAA00620.38 AA00
1341hmh_F_DA165_DC164AAwAA10170.46 AA10
1351hmh_F_DC170_DG11AAAAA08350.36 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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