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Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.
Crystal structure of Streptococcus pyogenes Cas9 in complex with guide RNA and target DNA

Results of the assignment of 232 detected steps in 1 model(s), can be also downloaded as csv file. Average confal 0, percentile 0.

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Click a row in table or a step in JSmol for analysis of results. Click column headers to sort data.
step numberStep nameCANANtCconfalrmsd
0014oo8_B_G1_G2AAAAA00830.14AA00
0024oo8_B_G2_A3AAAAA00730.25AA00
0034oo8_B_A3_A4AAAAA00920.23AA00
0044oo8_B_A4_A5AAAAA00950.15AA00
0054oo8_B_A5_U6AAAAA00820.15AA00
0064oo8_B_U6_U7AA1AA06750.28AA06
0074oo8_B_U7_A8AA1AA11940.21AA11
0084oo8_B_A8_G9AA1AA11940.23AA11
0094oo8_B_G9_G10AAAAA08890.26AA08
0104oo8_B_G10_U11AAAAA00930.11AA00
0114oo8_B_U11_G12AAAAA00520.19AA00
0124oo8_B_G12_C13AAAAA00940.18AA00
0134oo8_B_C13_G14AAAAA00880.09AA00
0144oo8_B_G14_C15AAAAA00850.17AA00
0154oo8_B_C15_U16AAAAA00940.09AA00
0164oo8_B_U16_U17AAAAA00760.15AA00
0174oo8_B_U17_G18AAAAA00610.36AA00
0184oo8_B_G18_G19AAAAA00860.11AA00
0194oo8_B_G19_C20AA1AA01860.20AA01
0204oo8_B_C20_G21AAAAA08690.38AA08
0214oo8_B_G21_U22AAAAA08880.17AA08
0224oo8_B_U22_U23AAAAA08870.18AA08
0234oo8_B_U23_U24AAAAA08590.40AA08
0244oo8_B_U24_U25AAAAA00900.12AA00
0254oo8_B_U25_A26AAAAA00900.19AA00
0264oo8_B_A26_G27AAAAA00840.13AA00
0274oo8_B_G27_A28NANNANT01.08OP06
0284oo8_B_A28_G29OPNOP17220.29OP17
0294oo8_B_G29_C30AAAAA00720.19AA00
0304oo8_B_C30_U31AAAAA00910.12AA00
0314oo8_B_U31_A32AAAAA00900.13AA00
0324oo8_B_A32_G33AA1AA01550.27AA01
0334oo8_B_G33_A34NANNANT00.45OP03
0344oo8_B_A34_A35AA1AA01240.36AA01
0354oo8_B_A35_A36AA1AA06520.28AA06
0364oo8_B_A36_U37NANNANT00.92AA10
0374oo8_B_U37_A38AA1AA01640.39AA01
0384oo8_B_A38_G39NANNANT00.82AB02
0394oo8_B_G39_C40NANNANT00.38AA10
0404oo8_B_C40_A41AAAAA08810.22AA08
0414oo8_B_A41_A42AAAAA08880.28AA08
0424oo8_B_A42_G43A-BAB05750.35AB05
0434oo8_B_G43_U44OPNOP20280.65OP20
0444oo8_B_U44_U45OPNOP11680.59OP11
0454oo8_B_U45_A46AAAAA00870.19AA00
0464oo8_B_A46_A47AAAAA00710.21AA00
0474oo8_B_A47_A48AAAAA08770.14AA08
0484oo8_B_A48_A49AAAAA00930.18AA00
0494oo8_B_A49_U50AAAAA00790.17AA00
0504oo8_B_U50_A51NANNANT02.32ZZ1S
0514oo8_B_A51_A52NANNANT01.28OPS1
0524oo8_B_A52_G53NANNANT01.01AA08
0534oo8_B_G53_G54AAAAA00810.17AA00
0544oo8_B_G54_C55AAAAA08650.35AA08
0554oo8_B_C55_U56NANNANT00.93OP04
0564oo8_B_U56_A57NANNANT00.89OP20
0574oo8_B_A57_G58NANNANT01.45BB07
0584oo8_B_G58_U59NANNANT00.98OP17
0594oo8_B_U59_C60OPNOP06180.54OP06
0604oo8_B_C60_C61AAAAA00960.10AA00
0614oo8_B_C61_G62AAAAA00860.12AA00
0624oo8_B_G62_U63NANNANT00.89OP07
0634oo8_B_U63_U64OPNOP11840.25OP11
0644oo8_B_U64_A65AAAAA00290.39AA00
0654oo8_B_A65_U66AAAAA08610.32AA08
0664oo8_B_U66_C67AAAAA00390.41AA00
0674oo8_B_C67_A68NANNANT01.39OP17
0684oo8_B_A68_A69AAAAA00520.35AA00
0694oo8_B_A69_C70AAAAA00890.12AA00
0704oo8_B_C70_U71AA1AA01840.20AA01
0714oo8_B_U71_U72NANNANT00.47AA10
0724oo8_B_U72_G73AA1AA01460.44AA01
0734oo8_B_G73_A74OPNOP03260.29OP03
0744oo8_B_A74_A75AAAAA08760.33AA08
0754oo8_B_A75_A76AAAAA08810.16AA08
0764oo8_B_A76_A77NANNANT01.12AA08
0774oo8_B_A77_A78AAAAA00850.16AA00
0784oo8_B_A78_G79AA1AA01660.22AA01
0794oo8_B_G79_U80AAAAA08310.39AA08
0804oo8_B_U80_G81A-BAB05260.58AB05
0814oo8_B_G81_G82NANNANT01.42OP17
0824oo8_B_G82_C83AAAAA00650.23AA00
0834oo8_B_C83_A84AA1AA01540.30AA01
0844oo8_B_A84_C85AAAAA08920.18AA08
0854oo8_B_C85_C86AAAAA00790.15AA00
0864oo8_B_C86_G87AA1AA10770.20AA10
0874oo8_B_G87_A88A-BAB05740.28AB05
0884oo8_B_A88_G89NANNANT01.52OP13
0894oo8_B_G89_U90NANNANT00.94BB07
0904oo8_B_U90_C91NANNANT01.45OP15
0914oo8_B_C91_G92AAAAA00910.21AA00
0924oo8_B_G92_G93AAAAA00900.14AA00
0934oo8_B_G93_U94AAAAA00920.17AA00
0944oo8_B_U94_G95AAAAA00840.15AA00
0954oo8_B_G95_C96AAAAA00780.26AA00
0964oo8_B_C96_U97AAAAA00880.17AA00
0974oo8_C_DG1_DC2AAAAA00880.21AA00
0984oo8_C_DC2_DC3AAAAA00920.12AA00
0994oo8_C_DC3_DA4AAAAA00870.10AA00
1004oo8_C_DA4_DA5AAAAA00650.28AA00
1014oo8_C_DA5_DG6AAAAA00980.10AA00
1024oo8_C_DG6_DC7AAAAA00910.20AA00
1034oo8_C_DC7_DG8AAAAA00920.18AA00
1044oo8_C_DG8_DC9AAAAA00890.17AA00
1054oo8_C_DC9_DA10AAAAA00850.16AA00
1064oo8_C_DA10_DC11AAAAA00670.21AA00
1074oo8_C_DC11_DC12A-BAB01500.32AB01
1084oo8_C_DC12_DT13BBBBB00700.21BB00
1094oo8_C_DT13_DA14BBBBB00330.38BB00
1104oo8_C_DA14_DA15B-ABA09290.52BA09
1114oo8_C_DA15_DT16AA1AA01310.48AA01
1124oo8_C_DT16_DT17AAAAA00460.30AA00
1134oo8_C_DT17_DT18AAAAA00770.15AA00
1144oo8_C_DT18_DC19AA1AA01920.17AA01
1154oo8_C_DC19_DC20AAAAA00720.26AA00
1164oo8_E_G1_G2AAAAA00810.16AA00
1174oo8_E_G2_A3AAAAA00500.32AA00
1184oo8_E_A3_A4AAAAA00930.24AA00
1194oo8_E_A4_A5AAAAA00920.12AA00
1204oo8_E_A5_U6AAAAA00880.11AA00
1214oo8_E_U6_U7AAAAA00870.11AA00
1224oo8_E_U7_A8AAAAA00850.15AA00
1234oo8_E_A8_G9AAAAA00820.15AA00
1244oo8_E_G9_G10AA1AA01760.26AA01
1254oo8_E_G10_U11AAAAA08830.30AA08
1264oo8_E_U11_G12AAAAA00820.16AA00
1274oo8_E_G12_C13AAAAA00950.16AA00
1284oo8_E_C13_G14AAAAA00860.11AA00
1294oo8_E_G14_C15AAAAA00900.18AA00
1304oo8_E_C15_U16AAAAA00880.15AA00
1314oo8_E_U16_U17AA1AA01550.26AA01
1324oo8_E_U17_G18AAAAA08820.32AA08
1334oo8_E_G18_G19AAAAA08810.27AA08
1344oo8_E_G19_C20AA1AA01840.21AA01
1354oo8_E_C20_G21AAAAA00400.40AA00
1364oo8_E_G21_U22AAAAA00870.17AA00
1374oo8_E_U22_U23AAAAA08860.18AA08
1384oo8_E_U23_U24AAAAA00610.38AA00
1394oo8_E_U24_U25AAAAA00880.16AA00
1404oo8_E_U25_A26AAAAA00880.20AA00
1414oo8_E_A26_G27AAAAA00870.13AA00
1424oo8_E_G27_A28NANNANT01.08OP06
1434oo8_E_A28_G29OPNOP17610.30OP17
1444oo8_E_G29_C30AAAAA00680.17AA00
1454oo8_E_C30_U31AAAAA00970.11AA00
1464oo8_E_U31_A32AAAAA00670.34AA00
1474oo8_E_A32_G33AAAAA00570.30AA00
1484oo8_E_G33_A34OPNOP03150.43OP03
1494oo8_E_A34_A35AAAAA08160.50AA08
1504oo8_E_A35_A36AAAAA00900.18AA00
1514oo8_E_A36_U37NANNANT00.89AA10
1524oo8_E_U37_A38AA1AA06570.26AA06
1534oo8_E_A38_G39NANNANT00.79AA10
1544oo8_E_G39_C40AA1AA10360.36AA10
1554oo8_E_C40_A41AAAAA08960.16AA08
1564oo8_E_A41_A42AAAAA00650.29AA00
1574oo8_E_A42_G43A-BAB05870.32AB05
1584oo8_E_G43_U44OPNOP20260.65OP20
1594oo8_E_U44_U45OPNOP11660.59OP11
1604oo8_E_U45_A46AAAAA00810.17AA00
1614oo8_E_A46_A47AAAAA00590.23AA00
1624oo8_E_A47_A48AAAAA00750.26AA00
1634oo8_E_A48_A49AAAAA00950.17AA00
1644oo8_E_A49_U50AAAAA08750.15AA08
1654oo8_E_U50_A51NANNANT01.64OP02
1664oo8_E_A51_A52NANNANT01.25OPS1
1674oo8_E_A52_G53AA1AA05680.25AA05
1684oo8_E_G53_G54AAAAA00760.20AA00
1694oo8_E_G54_C55A-BAB05780.28AB05
1704oo8_E_C55_U56NANNANT01.24BA16
1714oo8_E_U56_A57NANNANT01.10IC02
1724oo8_E_A57_G58NANNANT01.53BB07
1734oo8_E_G58_U59NANNANT00.98OP17
1744oo8_E_U59_C60OPNOP06260.53OP06
1754oo8_E_C60_C61AAAAA00940.09AA00
1764oo8_E_C61_G62AAAAA00920.14AA00
1774oo8_E_G62_U63NANNANT00.92OP07
1784oo8_E_U63_U64OPNOP11760.32OP11
1794oo8_E_U64_A65AAAAA00240.41AA00
1804oo8_E_A65_U66AAAAA00460.34AA00
1814oo8_E_U66_C67AAAAA00450.28AA00
1824oo8_E_C67_A68NANNANT01.37OP17
1834oo8_E_A68_A69AAAAA08650.31AA08
1844oo8_E_A69_C70AAAAA00860.15AA00
1854oo8_E_C70_U71AAAAA00780.23AA00
1864oo8_E_U71_U72AAAAA00860.19AA00
1874oo8_E_U72_G73AAAAA00730.26AA00
1884oo8_E_G73_A74OPNOP03740.31OP03
1894oo8_E_A74_A75NANNANT00.56AA10
1904oo8_E_A75_A76NANNANT00.47AA04
1914oo8_E_A76_A77NANNANT00.72AA05
1924oo8_E_A77_A78AAAAA00860.16AA00
1934oo8_E_A78_G79NANNANT00.41AA10
1944oo8_E_G79_U80AAAAA00180.38AA00
1954oo8_E_U80_G81A-BAB05180.62AB05
1964oo8_E_G81_G82NANNANT01.46OP17
1974oo8_E_G82_C83AAAAA00850.17AA00
1984oo8_E_C83_A84AAAAA00960.14AA00
1994oo8_E_A84_C85AAAAA00860.15AA00
2004oo8_E_C85_C86AAAAA00930.14AA00
2014oo8_E_C86_G87AAAAA08570.27AA08
2024oo8_E_G87_A88A-BAB05720.24AB05
2034oo8_E_A88_G89NANNANT01.49OP13
2044oo8_E_G89_U90NANNANT00.98BB07
2054oo8_E_U90_C91NANNANT01.47OP15
2064oo8_E_C91_G92A-BAB04780.31AB04
2074oo8_E_G92_G93B-ABA0180.30BA01
2084oo8_E_G93_U94AAAAA00890.16AA00
2094oo8_E_U94_G95AAAAA00910.11AA00
2104oo8_E_G95_C96AA1AA10610.23AA10
2114oo8_E_C96_U97NANNANT00.90AA04
2124oo8_F_DC-1_DA0NANNANT00.80BB03
2134oo8_F_DA0_DG1NANNANT00.68OP17
2144oo8_F_DG1_DC2NANNANT00.67AA09
2154oo8_F_DC2_DC3AAAAA00860.27AA00
2164oo8_F_DC3_DA4AAAAA00840.13AA00
2174oo8_F_DA4_DA5AAAAA00630.29AA00
2184oo8_F_DA5_DG6AAAAA00980.10AA00
2194oo8_F_DG6_DC7AAAAA00940.17AA00
2204oo8_F_DC7_DG8AAAAA00890.17AA00
2214oo8_F_DG8_DC9AAAAA00780.17AA00
2224oo8_F_DC9_DA10AAAAA00810.14AA00
2234oo8_F_DA10_DC11AAAAA00920.12AA00
2244oo8_F_DC11_DC12AAAAA00950.16AA00
2254oo8_F_DC12_DT13AAAAA00920.16AA00
2264oo8_F_DT13_DA14A-BAB05380.27AB05
2274oo8_F_DA14_DA15B-ABA0190.45BA01
2284oo8_F_DA15_DT16AAAAA00900.23AA00
2294oo8_F_DT16_DT17AAAAA00890.15AA00
2304oo8_F_DT17_DT18AAAAA00830.15AA00
2314oo8_F_DT18_DC19AA1AA01900.17AA01
2324oo8_F_DC19_DC20AAAAA00740.25AA00

Steps with non-standard or missing atoms have not been assigned, description of conformers is defined in the table.

© Jiří Černý & Bohdan Schneider

Definition of torsion angles
step:
Table of conformers

δεζα1β1γ1δ1χχ1NCCNNNCC
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

Drag the plot for panning, scroll to zoom, click a point to show superposition in JSmol.

Download

Results (as csv)
Restraints (default edits file)
Best NtC fitted to input structure.

Definition of the conformers as torsion averages (csv) and their esd values (csv) or as their Cartesian coordinates of the 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).

Show



Color by conformation group (pyramids)

group
visible

Color by NtC (balls)

A

A-B

B-A

B

IC

OPN

Z

N