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Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.
SL3 HAIRPIN FROM THE PACKAGING SIGNAL OF HIV-1, NMR, 11 STRUCTURES

Results of the assignment of 209 detected steps in 11 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
0011bn0-m10_A_G1_G2AA2AA12100.50AA12
0021bn0-m11_A_G1_G2NANNANT00.57AA09
0031bn0-m1_A_G1_G2AAAAA00100.47AA00
0041bn0-m2_A_G1_G2AAAAA00280.46AA00
0051bn0-m3_A_G1_G2AAAAA00130.46AA00
0061bn0-m4_A_G1_G2AAAAA00220.50AA00
0071bn0-m5_A_G1_G2AAAAA04160.62AA04
0081bn0-m6_A_G1_G2AAAAA0060.61AA00
0091bn0-m7_A_G1_G2AAAAA00120.56AA00
0101bn0-m8_A_G1_G2AAAAA0080.57AA00
0111bn0-m9_A_G1_G2NANNANT00.54AA09
0121bn0-m10_A_G2_A3AAAAA04710.42AA04
0131bn0-m11_A_G2_A3AAAAA04810.43AA04
0141bn0-m1_A_G2_A3AAAAA08460.49AA08
0151bn0-m2_A_G2_A3AAAAA08160.51AA08
0161bn0-m3_A_G2_A3AAAAA08350.48AA08
0171bn0-m4_A_G2_A3AAAAA08130.50AA08
0181bn0-m5_A_G2_A3AAAAA08660.46AA08
0191bn0-m6_A_G2_A3AAAAA04760.37AA04
0201bn0-m7_A_G2_A3AA1AA10540.43AA10
0211bn0-m8_A_G2_A3AAAAA04750.46AA04
0221bn0-m9_A_G2_A3AAAAA04670.49AA04
0231bn0-m10_A_A3_C4AAAAA00310.33AA00
0241bn0-m11_A_A3_C4AAAAA00320.35AA00
0251bn0-m1_A_A3_C4AAAAA00190.36AA00
0261bn0-m2_A_A3_C4AAAAA00140.40AA00
0271bn0-m3_A_A3_C4AAAAA00730.30AA00
0281bn0-m4_A_A3_C4AAAAA00290.37AA00
0291bn0-m5_A_A3_C4AAAAA04580.36AA04
0301bn0-m6_A_A3_C4AAAAA00380.35AA00
0311bn0-m7_A_A3_C4AAAAA00280.38AA00
0321bn0-m8_A_A3_C4AAAAA04640.30AA04
0331bn0-m9_A_A3_C4AAAAA00370.36AA00
0341bn0-m10_A_C4_U5AAAAA00720.21AA00
0351bn0-m11_A_C4_U5AAAAA00730.18AA00
0361bn0-m1_A_C4_U5AAAAA08660.31AA08
0371bn0-m2_A_C4_U5AAAAA00640.26AA00
0381bn0-m3_A_C4_U5AAAAA00680.27AA00
0391bn0-m4_A_C4_U5AAAAA08740.26AA08
0401bn0-m5_A_C4_U5AAAAA00660.25AA00
0411bn0-m6_A_C4_U5AAAAA08760.22AA08
0421bn0-m7_A_C4_U5AAAAA08710.26AA08
0431bn0-m8_A_C4_U5AAAAA00680.22AA00
0441bn0-m9_A_C4_U5AAAAA00670.20AA00
0451bn0-m10_A_U5_A6AAAAA00660.28AA00
0461bn0-m11_A_U5_A6AAAAA00730.17AA00
0471bn0-m1_A_U5_A6AAAAA00570.26AA00
0481bn0-m2_A_U5_A6AAAAA00740.19AA00
0491bn0-m3_A_U5_A6AAAAA00420.27AA00
0501bn0-m4_A_U5_A6AAAAA00510.26AA00
0511bn0-m5_A_U5_A6AAAAA00760.19AA00
0521bn0-m6_A_U5_A6NANNANT00.45AB05
0531bn0-m7_A_U5_A6AAAAA00720.18AA00
0541bn0-m8_A_U5_A6AAAAA00720.24AA00
0551bn0-m9_A_U5_A6AAAAA00750.20AA00
0561bn0-m10_A_A6_G7AAAAA08280.48AA08
0571bn0-m11_A_A6_G7AAAAA04680.44AA04
0581bn0-m1_A_A6_G7AAAAA04710.41AA04
0591bn0-m2_A_A6_G7AAAAA04670.44AA04
0601bn0-m3_A_A6_G7AAAAA04730.46AA04
0611bn0-m4_A_A6_G7AAAAA04720.44AA04
0621bn0-m5_A_A6_G7AAAAA00240.33AA00
0631bn0-m6_A_A6_G7BBBBB00540.56BB00
0641bn0-m7_A_A6_G7AAAAA04680.47AA04
0651bn0-m8_A_A6_G7AAAAA04640.48AA04
0661bn0-m9_A_A6_G7AAAAA04650.45AA04
0671bn0-m10_A_G7_C8AAAAA00330.38AA00
0681bn0-m11_A_G7_C8NANNANT00.60AB02
0691bn0-m1_A_G7_C8NANNANT00.68AB02
0701bn0-m2_A_G7_C8NANNANT00.59AB02
0711bn0-m3_A_G7_C8NANNANT00.62AB02
0721bn0-m4_A_G7_C8NANNANT00.61AB02
0731bn0-m5_A_G7_C8NANNANT00.60AB02
0741bn0-m6_A_G7_C8NANNANT00.62BA16
0751bn0-m7_A_G7_C8AAAAA00450.38AA00
0761bn0-m8_A_G7_C8NANNANT00.60AB02
0771bn0-m9_A_G7_C8AAAAA04310.41AA04
0781bn0-m10_A_C8_G9NANNANT01.16AA11
0791bn0-m11_A_C8_G9NANNANT01.22AA11
0801bn0-m1_A_C8_G9NANNANT00.90AA11
0811bn0-m2_A_C8_G9NANNANT00.72AA11
0821bn0-m3_A_C8_G9NANNANT00.96AA11
0831bn0-m4_A_C8_G9NANNANT00.68AA11
0841bn0-m5_A_C8_G9NANNANT01.54AA11
0851bn0-m6_A_C8_G9NANNANT01.10AA11
0861bn0-m7_A_C8_G9AA1AA11250.45AA11
0871bn0-m8_A_C8_G9NANNANT01.11AA11
0881bn0-m9_A_C8_G9NANNANT01.46AA11
0891bn0-m10_A_G9_G10NANNANT01.86IC03
0901bn0-m11_A_G9_G10NANNANT01.50BB03
0911bn0-m1_A_G9_G10NANNANT01.54BB03
0921bn0-m2_A_G9_G10NANNANT00.38OP03
0931bn0-m3_A_G9_G10NANNANT01.83IC03
0941bn0-m4_A_G9_G10NANNANT01.58AA01
0951bn0-m5_A_G9_G10NANNANT01.38BB03
0961bn0-m6_A_G9_G10NANNANT01.47BB03
0971bn0-m7_A_G9_G10NANNANT02.45OP01
0981bn0-m8_A_G9_G10NANNANT01.52BB03
0991bn0-m9_A_G9_G10NANNANT01.59BB03
1001bn0-m10_A_G10_A11NANNANT00.96OPS1
1011bn0-m11_A_G10_A11NANNANT01.23BB07
1021bn0-m1_A_G10_A11NANNANT01.30BB07
1031bn0-m2_A_G10_A11NANNANT00.81IC01
1041bn0-m3_A_G10_A11NANNANT01.07IC05
1051bn0-m4_A_G10_A11NANNANT00.47BB16
1061bn0-m5_A_G10_A11NANNANT01.25ZZS2
1071bn0-m6_A_G10_A11NANNANT01.23IC05
1081bn0-m7_A_G10_A11NANNANT00.45IC06
1091bn0-m8_A_G10_A11NANNANT01.08OPS1
1101bn0-m9_A_G10_A11NANNANT01.28BB07
1111bn0-m10_A_A11_G12NANNANT01.41OP18
1121bn0-m11_A_A11_G12NANNANT01.39OP18
1131bn0-m1_A_A11_G12NANNANT01.32OP18
1141bn0-m2_A_A11_G12NANNANT01.35AB02
1151bn0-m3_A_A11_G12NANNANT01.24OP18
1161bn0-m4_A_A11_G12NANNANT01.54BB1S
1171bn0-m5_A_A11_G12NANNANT01.66OP15
1181bn0-m6_A_A11_G12NANNANT01.95BB03
1191bn0-m7_A_A11_G12NANNANT01.95BB03
1201bn0-m8_A_A11_G12NANNANT01.36OP18
1211bn0-m9_A_A11_G12NANNANT01.23OP14
1221bn0-m10_A_G12_G13NANNANT01.25OP01
1231bn0-m11_A_G12_G13NANNANT01.27OP01
1241bn0-m1_A_G12_G13NANNANT01.58OP11
1251bn0-m2_A_G12_G13NANNANT01.98OP01
1261bn0-m3_A_G12_G13NANNANT00.79OP11
1271bn0-m4_A_G12_G13NANNANT01.32OP01
1281bn0-m5_A_G12_G13NANNANT01.42AA10
1291bn0-m6_A_G12_G13NANNANT01.47OP01
1301bn0-m7_A_G12_G13NANNANT01.35OP01
1311bn0-m8_A_G12_G13NANNANT01.17OP01
1321bn0-m9_A_G12_G13NANNANT01.19OP01
1331bn0-m10_A_G13_C14AAAAA00370.42AA00
1341bn0-m11_A_G13_C14AAAAA00260.39AA00
1351bn0-m1_A_G13_C14NANNANT00.60AA09
1361bn0-m2_A_G13_C14AAAAA00300.41AA00
1371bn0-m3_A_G13_C14AAAAA00400.37AA00
1381bn0-m4_A_G13_C14AAAAA00410.40AA00
1391bn0-m5_A_G13_C14AAAAA00200.31AA00
1401bn0-m6_A_G13_C14AAAAA00130.42AA00
1411bn0-m7_A_G13_C14AAAAA00220.41AA00
1421bn0-m8_A_G13_C14AAAAA00170.47AA00
1431bn0-m9_A_G13_C14AAAAA00440.35AA00
1441bn0-m10_A_C14_U15A-BAB01510.29AB01
1451bn0-m11_A_C14_U15A-BAB05650.24AB05
1461bn0-m1_A_C14_U15AAAAA04590.36AA04
1471bn0-m2_A_C14_U15AAAAA04670.36AA04
1481bn0-m3_A_C14_U15AA1AA01680.31AA01
1491bn0-m4_A_C14_U15AAAAA04690.35AA04
1501bn0-m5_A_C14_U15A-BAB02400.41AB02
1511bn0-m6_A_C14_U15A-BAB01560.26AB01
1521bn0-m7_A_C14_U15A-BAB01450.29AB01
1531bn0-m8_A_C14_U15A-BAB01350.37AB01
1541bn0-m9_A_C14_U15A-BAB01350.27AB01
1551bn0-m10_A_U15_A16NANNANT00.59BA08
1561bn0-m11_A_U15_A16NANNANT00.54BA08
1571bn0-m1_A_U15_A16AAAAA00410.36AA00
1581bn0-m2_A_U15_A16AAAAA00220.46AA00
1591bn0-m3_A_U15_A16AAAAA00580.36AA00
1601bn0-m4_A_U15_A16AAAAA00450.36AA00
1611bn0-m5_A_U15_A16NANNANT00.52BA08
1621bn0-m6_A_U15_A16NANNANT00.58BA08
1631bn0-m7_A_U15_A16NANNANT00.57BA08
1641bn0-m8_A_U15_A16B-ABA0590.26BA05
1651bn0-m9_A_U15_A16B-ABA0170.24BA01
1661bn0-m10_A_A16_G17AAAAA00200.53AA00
1671bn0-m11_A_A16_G17AAAAA00390.38AA00
1681bn0-m1_A_A16_G17AAAAA00320.40AA00
1691bn0-m2_A_A16_G17AAAAA00370.42AA00
1701bn0-m3_A_A16_G17AAAAA04830.50AA04
1711bn0-m4_A_A16_G17AAAAA00340.43AA00
1721bn0-m5_A_A16_G17AAAAA00480.40AA00
1731bn0-m6_A_A16_G17AAAAA00460.37AA00
1741bn0-m7_A_A16_G17AAAAA00360.43AA00
1751bn0-m8_A_A16_G17AAAAA00250.52AA00
1761bn0-m9_A_A16_G17AAAAA04640.54AA04
1771bn0-m10_A_G17_U18AAAAA00620.37AA00
1781bn0-m11_A_G17_U18AAAAA00280.52AA00
1791bn0-m1_A_G17_U18AA2AA12580.42AA12
1801bn0-m2_A_G17_U18NANNANT00.71AA04
1811bn0-m3_A_G17_U18AAAAA00340.48AA00
1821bn0-m4_A_G17_U18AAAAA00380.46AA00
1831bn0-m5_A_G17_U18AA2AA12700.40AA12
1841bn0-m6_A_G17_U18AAAAA00490.45AA00
1851bn0-m7_A_G17_U18AAAAA00330.47AA00
1861bn0-m8_A_G17_U18NANNANT00.72AB04
1871bn0-m9_A_G17_U18AAAAA00500.37AA00
1881bn0-m10_A_U18_C19AAAAA00610.28AA00
1891bn0-m11_A_U18_C19A-BAB04210.46AB04
1901bn0-m1_A_U18_C19AAAAA00240.45AA00
1911bn0-m2_A_U18_C19NANNANT00.67AA04
1921bn0-m3_A_U18_C19AAAAA00430.42AA00
1931bn0-m4_A_U18_C19AAAAA00550.41AA00
1941bn0-m5_A_U18_C19NANNANT00.55AB04
1951bn0-m6_A_U18_C19NANNANT00.49AB04
1961bn0-m7_A_U18_C19NANNANT00.53AB04
1971bn0-m8_A_U18_C19NANNANT00.79AA04
1981bn0-m9_A_U18_C19NANNANT00.54AB04
1991bn0-m10_A_C19_C20AA2AA12290.72AA12
2001bn0-m11_A_C19_C20NANNANT01.07AA11
2011bn0-m1_A_C19_C20AA2AA12620.54AA12
2021bn0-m2_A_C19_C20AAAAA00440.35AA00
2031bn0-m3_A_C19_C20AA2AA12610.56AA12
2041bn0-m4_A_C19_C20AA2AA12610.56AA12
2051bn0-m5_A_C19_C20NANNANT00.99AA11
2061bn0-m6_A_C19_C20NANNANT01.08AA11
2071bn0-m7_A_C19_C20NANNANT00.92AA01
2081bn0-m8_A_C19_C20AA2AA12390.36AA12
2091bn0-m9_A_C19_C20NANNANT00.96AA01

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