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Conformers: ABBIImiBZICOPNSYNN See the J(S)mol wiki for description of applet controls.
Solution structure of APOBEC3G-CD2 with ssDNA, Product B

Results of the assignment of 180 detected steps in 20 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
0016k3k-m10_B_DA385_DT386AAAAA00840.23AA00
0026k3k-m11_B_DA385_DT386AAAAA00650.35AA00
0036k3k-m12_B_DA385_DT386NANNANT00.80BA08
0046k3k-m13_B_DA385_DT386AAAAA00660.29AA00
0056k3k-m14_B_DA385_DT386AAAAA00760.26AA00
0066k3k-m15_B_DA385_DT386AAAAA00850.25AA00
0076k3k-m16_B_DA385_DT386AAAAA00670.35AA00
0086k3k-m17_B_DA385_DT386AAAAA00740.26AA00
0096k3k-m18_B_DA385_DT386AAAAA00790.26AA00
0106k3k-m19_B_DA385_DT386AAAAA00640.35AA00
0116k3k-m1_B_DA385_DT386AAAAA00800.24AA00
0126k3k-m20_B_DA385_DT386AAAAA00690.32AA00
0136k3k-m2_B_DA385_DT386NANNANT00.76BA08
0146k3k-m3_B_DA385_DT386AAAAA00870.21AA00
0156k3k-m4_B_DA385_DT386AAAAA00710.31AA00
0166k3k-m5_B_DA385_DT386NANNANT00.80BA08
0176k3k-m6_B_DA385_DT386AAAAA00650.34AA00
0186k3k-m7_B_DA385_DT386NANNANT00.68BA08
0196k3k-m8_B_DA385_DT386AAAAA00600.31AA00
0206k3k-m9_B_DA385_DT386AAAAA00730.28AA00
0216k3k-m10_B_DT386_DT387A-BAB05690.49AB05
0226k3k-m11_B_DT386_DT387AAAAA08350.54AA08
0236k3k-m12_B_DT386_DT387A-BAB05810.41AB05
0246k3k-m13_B_DT386_DT387A-BAB05550.53AB05
0256k3k-m14_B_DT386_DT387A-BAB05650.51AB05
0266k3k-m15_B_DT386_DT387AAAAA00370.45AA00
0276k3k-m16_B_DT386_DT387AAAAA00520.45AA00
0286k3k-m17_B_DT386_DT387A-BAB05680.50AB05
0296k3k-m18_B_DT386_DT387A-BAB05820.39AB05
0306k3k-m19_B_DT386_DT387AAAAA08370.52AA08
0316k3k-m1_B_DT386_DT387A-BAB05740.44AB05
0326k3k-m20_B_DT386_DT387AAAAA08370.53AA08
0336k3k-m2_B_DT386_DT387A-BAB05490.55AB05
0346k3k-m3_B_DT386_DT387AAAAA08320.51AA08
0356k3k-m4_B_DT386_DT387NANNANT00.43AA00
0366k3k-m5_B_DT386_DT387A-BAB05450.57AB05
0376k3k-m6_B_DT386_DT387AAAAA08440.46AA08
0386k3k-m7_B_DT386_DT387AAAAA00270.51AA00
0396k3k-m8_B_DT386_DT387A-BAB05790.43AB05
0406k3k-m9_B_DT386_DT387A-BAB05650.51AB05
0416k3k-m10_B_DT387_DC388NANNANT01.19OP12
0426k3k-m11_B_DT387_DC388NANNANT01.06AA12
0436k3k-m12_B_DT387_DC388NANNANT01.19OP12
0446k3k-m13_B_DT387_DC388NANNANT01.20OP12
0456k3k-m14_B_DT387_DC388NANNANT00.93BA01
0466k3k-m15_B_DT387_DC388NANNANT00.99OP12
0476k3k-m16_B_DT387_DC388NANNANT01.05AA12
0486k3k-m17_B_DT387_DC388NANNANT00.85BA01
0496k3k-m18_B_DT387_DC388NANNANT01.20OP12
0506k3k-m19_B_DT387_DC388NANNANT01.07AA12
0516k3k-m1_B_DT387_DC388NANNANT01.18OP12
0526k3k-m20_B_DT387_DC388NANNANT01.06AA12
0536k3k-m2_B_DT387_DC388NANNANT01.16OP12
0546k3k-m3_B_DT387_DC388NANNANT01.01AA12
0556k3k-m4_B_DT387_DC388NANNANT01.06AA12
0566k3k-m5_B_DT387_DC388NANNANT00.87BA01
0576k3k-m6_B_DT387_DC388NANNANT01.06AA12
0586k3k-m7_B_DT387_DC388NANNANT00.97OP12
0596k3k-m8_B_DT387_DC388NANNANT01.20OP12
0606k3k-m9_B_DT387_DC388NANNANT00.82BA01
0616k3k-m10_B_DC388_DU389AAAAA00640.27AA00
0626k3k-m11_B_DC388_DU389AAAAA00800.24AA00
0636k3k-m12_B_DC388_DU389AAAAA00400.30AA00
0646k3k-m13_B_DC388_DU389AAAAA00710.24AA00
0656k3k-m14_B_DC388_DU389AAAAA00930.12AA00
0666k3k-m15_B_DC388_DU389AAAAA00880.18AA00
0676k3k-m16_B_DC388_DU389AAAAA00530.29AA00
0686k3k-m17_B_DC388_DU389AAAAA00920.12AA00
0696k3k-m18_B_DC388_DU389AAAAA00720.24AA00
0706k3k-m19_B_DC388_DU389AAAAA00820.22AA00
0716k3k-m1_B_DC388_DU389AAAAA00800.20AA00
0726k3k-m20_B_DC388_DU389AAAAA00770.25AA00
0736k3k-m2_B_DC388_DU389AAAAA00920.10AA00
0746k3k-m3_B_DC388_DU389AAAAA00840.22AA00
0756k3k-m4_B_DC388_DU389AAAAA00790.24AA00
0766k3k-m5_B_DC388_DU389AAAAA00920.11AA00
0776k3k-m6_B_DC388_DU389AAAAA00850.20AA00
0786k3k-m7_B_DC388_DU389AAAAA00360.35AA00
0796k3k-m8_B_DC388_DU389AAAAA00490.28AA00
0806k3k-m9_B_DC388_DU389AAAAA00930.09AA00
0816k3k-m10_B_DU389_C38390NANNANT00.69AA12
0826k3k-m11_B_DU389_C38390NANNANT00.74AA12
0836k3k-m12_B_DU389_C38390AAAAA00130.54AA00
0846k3k-m13_B_DU389_C38390NANNANT00.61AB2S
0856k3k-m14_B_DU389_C38390NANNANT00.68AA12
0866k3k-m15_B_DU389_C38390NANNANT00.78AA12
0876k3k-m16_B_DU389_C38390AAAAA00160.52AA00
0886k3k-m17_B_DU389_C38390NANNANT00.53AB1S
0896k3k-m18_B_DU389_C38390AAAAA00130.54AA00
0906k3k-m19_B_DU389_C38390AAAAA00120.53AA00
0916k3k-m1_B_DU389_C38390AAAAA00190.50AA00
0926k3k-m20_B_DU389_C38390NANNANT00.75AA12
0936k3k-m2_B_DU389_C38390NANNANT00.72AA12
0946k3k-m3_B_DU389_C38390NANNANT00.72AA12
0956k3k-m4_B_DU389_C38390NANNANT00.56AB1S
0966k3k-m5_B_DU389_C38390NANNANT00.76AA12
0976k3k-m6_B_DU389_C38390NANNANT00.71AA12
0986k3k-m7_B_DU389_C38390NANNANT00.74AA12
0996k3k-m8_B_DU389_C38390AAAAA00180.52AA00
1006k3k-m9_B_DU389_C38390NANNANT00.69AA12
1016k3k-m10_B_C38390_DA391AA2AA12350.64AA12
1026k3k-m11_B_C38390_DA391AA2AA12300.64AA12
1036k3k-m12_B_C38390_DA391AA2AA12320.67AA12
1046k3k-m13_B_C38390_DA391NANNANT01.44OPS1
1056k3k-m14_B_C38390_DA391AA2AA12430.65AA12
1066k3k-m15_B_C38390_DA391NANNANT00.65AA12
1076k3k-m16_B_C38390_DA391NANNANT00.71AA12
1086k3k-m17_B_C38390_DA391NANNANT01.40OPS1
1096k3k-m18_B_C38390_DA391AA2AA12450.61AA12
1106k3k-m19_B_C38390_DA391NANNANT00.69AA12
1116k3k-m1_B_C38390_DA391NANNANT00.69AA12
1126k3k-m20_B_C38390_DA391AA2AA12390.65AA12
1136k3k-m2_B_C38390_DA391AA2AA12400.64AA12
1146k3k-m3_B_C38390_DA391AA2AA12390.64AA12
1156k3k-m4_B_C38390_DA391NANNANT01.38OPS1
1166k3k-m5_B_C38390_DA391NANNANT00.68AA12
1176k3k-m6_B_C38390_DA391AA2AA12470.69AA12
1186k3k-m7_B_C38390_DA391AA2AA12230.68AA12
1196k3k-m8_B_C38390_DA391NANNANT00.68AA12
1206k3k-m9_B_C38390_DA391NANNANT00.66AA12
1216k3k-m10_B_DA391_DA392AA2AA12630.68AA12
1226k3k-m11_B_DA391_DA392NANNANT00.69AA12
1236k3k-m12_B_DA391_DA392NANNANT00.76AA12
1246k3k-m13_B_DA391_DA392AA2AA12640.70AA12
1256k3k-m14_B_DA391_DA392NANNANT00.72AA12
1266k3k-m15_B_DA391_DA392NANNANT00.73AA12
1276k3k-m16_B_DA391_DA392NANNANT00.76AA12
1286k3k-m17_B_DA391_DA392NANNANT00.79AA12
1296k3k-m18_B_DA391_DA392NANNANT00.77AA12
1306k3k-m19_B_DA391_DA392NANNANT00.73AA12
1316k3k-m1_B_DA391_DA392NANNANT00.73AA12
1326k3k-m20_B_DA391_DA392NANNANT00.73AA12
1336k3k-m2_B_DA391_DA392NANNANT00.75AA12
1346k3k-m3_B_DA391_DA392NANNANT00.75AA12
1356k3k-m4_B_DA391_DA392NANNANT00.79AA12
1366k3k-m5_B_DA391_DA392NANNANT00.73AA12
1376k3k-m6_B_DA391_DA392AA2AA12580.75AA12
1386k3k-m7_B_DA391_DA392NANNANT00.76AA12
1396k3k-m8_B_DA391_DA392NANNANT00.78AA12
1406k3k-m9_B_DA391_DA392NANNANT00.72AA12
1416k3k-m10_B_DA392_DT393AA2AA12630.76AA12
1426k3k-m11_B_DA392_DT393NANNANT00.93AA00
1436k3k-m12_B_DA392_DT393NANNANT00.84OP12
1446k3k-m13_B_DA392_DT393NANNANT00.84OP12
1456k3k-m14_B_DA392_DT393NANNANT00.86OP12
1466k3k-m15_B_DA392_DT393NANNANT00.84OP12
1476k3k-m16_B_DA392_DT393NANNANT00.93AA00
1486k3k-m17_B_DA392_DT393NANNANT00.83OP12
1496k3k-m18_B_DA392_DT393NANNANT00.82OP12
1506k3k-m19_B_DA392_DT393NANNANT00.82OP12
1516k3k-m1_B_DA392_DT393NANNANT00.91AA00
1526k3k-m20_B_DA392_DT393NANNANT00.89AA00
1536k3k-m2_B_DA392_DT393NANNANT00.92AA00
1546k3k-m3_B_DA392_DT393NANNANT00.83OP12
1556k3k-m4_B_DA392_DT393NANNANT00.84OP12
1566k3k-m5_B_DA392_DT393NANNANT00.95AA00
1576k3k-m6_B_DA392_DT393NANNANT00.77AA08
1586k3k-m7_B_DA392_DT393NANNANT00.78OP12
1596k3k-m8_B_DA392_DT393NANNANT00.83OP12
1606k3k-m9_B_DA392_DT393NANNANT00.82OP12
1616k3k-m10_B_DT393_DT394NANNANT00.94AA00
1626k3k-m11_B_DT393_DT394AAAAA00830.20AA00
1636k3k-m12_B_DT393_DT394AAAAA00840.19AA00
1646k3k-m13_B_DT393_DT394AAAAA00870.20AA00
1656k3k-m14_B_DT393_DT394AAAAA00800.23AA00
1666k3k-m15_B_DT393_DT394AAAAA00880.19AA00
1676k3k-m16_B_DT393_DT394AAAAA00880.19AA00
1686k3k-m17_B_DT393_DT394AAAAA00770.24AA00
1696k3k-m18_B_DT393_DT394AAAAA00830.22AA00
1706k3k-m19_B_DT393_DT394AAAAA00810.23AA00
1716k3k-m1_B_DT393_DT394AAAAA00850.20AA00
1726k3k-m20_B_DT393_DT394AAAAA00860.21AA00
1736k3k-m2_B_DT393_DT394AAAAA00840.21AA00
1746k3k-m3_B_DT393_DT394AAAAA00850.21AA00
1756k3k-m4_B_DT393_DT394AAAAA00850.21AA00
1766k3k-m5_B_DT393_DT394AAAAA00850.21AA00
1776k3k-m6_B_DT393_DT394NANNANT01.08AA12
1786k3k-m7_B_DT393_DT394AAAAA00840.20AA00
1796k3k-m8_B_DT393_DT394AAAAA00800.21AA00
1806k3k-m9_B_DT393_DT394AAAAA00830.22AA00

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).

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Color by conformation group (pyramids)

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Color by NtC (balls)

A

A-B

B-A

B

IC

OPN

Z

N