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Conformers: ABBIImiBZICOPNSYNN
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Crystal structure of YbxF bound to the SAM-I riboswitch aptamer

Results of the assignment of 244 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
0013v7e_C_G1_G2AAAAA08580.22 AA08
0023v7e_C_G2_C3AAAAA00900.15 AA00
0033v7e_C_C3_U4AAAAA00660.23 AA00
0043v7e_C_U4_U5AAAAA00610.28 AA00
0053v7e_C_U5_A6AAAAA00860.16 AA00
0063v7e_C_A6_U7AAAAA00860.12 AA00
0073v7e_C_U7_C8AAAAA00890.15 AA00
0083v7e_C_A10_G11AAAAA00510.34 AA00
0093v7e_C_G11_A12AAAAA08550.46 AA08
0103v7e_C_A12_G13NANNANT00.83 OP06
0113v7e_C_G13_A14NANNANT01.61 OP17
0123v7e_C_A14_G15NANNANT02.26 OP1S
0133v7e_C_G15_G16NANNANT00.71 AA12
0143v7e_C_G16_U17AAAAA00630.24 AA00
0153v7e_C_U17_G18NANNANT00.62 AA04
0163v7e_C_G18_G19NANNANT00.67 AA06
0173v7e_C_G19_A20NANNANT00.93 IC02
0183v7e_C_A20_G21NANNANT00.41 OP24
0193v7e_C_G21_G22AAAAA03820.24 AA03
0203v7e_C_G22_G23AAAAA00680.26 AA00
0213v7e_C_G23_A24NANNANT01.46 OP06
0223v7e_C_A24_C25AAAAA00390.22 AA00
0233v7e_C_C25_U26AAAAA00550.36 AA00
0243v7e_C_U26_G27AAAAA08470.58 AA08
0253v7e_C_G27_G28AAwAA01860.24 AA01
0263v7e_C_G28_C29AAAAA08570.42 AA08
0273v7e_C_C29_C30AAwAA01860.27 AA01
0283v7e_C_C30_C31AAAAA08700.24 AA08
0293v7e_C_C31_G32AAAAA00270.38 AA00
0303v7e_C_G32_A33NANNANT01.05 BB2S
0313v7e_C_A33_U34NANNANT01.81 OP14
0323v7e_C_U34_G35NANNANT00.89 OP20
0333v7e_C_G35_A36OPNOP10360.24 OP10
0343v7e_C_A36_A37AAAAA00690.29 AA00
0353v7e_C_A37_A38NANNANT00.46 AA00
0363v7e_C_A38_C39AAAAA00700.16 AA00
0373v7e_C_C39_C40AAAAA00750.18 AA00
0383v7e_C_C40_C41AAAAA00860.15 AA00
0393v7e_C_C41_G42AAAAA00230.39 AA00
0403v7e_C_G42_G43AAAAA00860.20 AA00
0413v7e_C_G43_C44AAAAA00820.22 AA00
0423v7e_C_C44_A45AAAAA00310.43 AA00
0433v7e_C_A45_A46A-BAB01450.31 AB01
0443v7e_C_A46_C47NANNANT00.44 OP26
0453v7e_C_C47_C48AAAAA08260.34 AA08
0463v7e_C_C48_A49AAAAA00660.23 AA00
0473v7e_C_A49_C50AAAAA00720.22 AA00
0483v7e_C_C50_U51AAAAA00570.24 AA00
0493v7e_C_U51_A52AAwAA06510.32 AA06
0503v7e_C_A52_G53AAAAA08760.27 AA08
0513v7e_C_G53_U54AAAAA00830.19 AA00
0523v7e_C_U54_C55AAAAA00760.17 AA00
0533v7e_C_C55_U56AAAAA00730.17 AA00
0543v7e_C_U56_A57AAAAA00610.18 AA00
0553v7e_C_A57_G58AAAAA00860.16 AA00
0563v7e_C_G58_C59AAAAA00610.32 AA00
0573v7e_C_C59_G60AAAAA00630.24 AA00
0583v7e_C_G60_U61AAAAA00680.22 AA00
0593v7e_C_U61_C62AAwAA06710.24 AA06
0603v7e_C_C62_A63NANNANT00.86 AA12
0613v7e_C_A63_G64AAwAA01550.39 AA01
0623v7e_C_G64_C65AAAAA00700.32 AA00
0633v7e_C_C65_U66AAAAA00560.33 AA00
0643v7e_C_U66_U67NANNANT01.58 OP29
0653v7e_C_U67_C68NANNANT02.01 AA11
0663v7e_C_C68_G69NANNANT01.30 OP09
0673v7e_C_G69_G70NANNANT00.71 AA05
0683v7e_C_G70_C71AAwAA01370.36 AA01
0693v7e_C_C71_U72AAAAA08710.19 AA08
0703v7e_C_U72_G73AAAAA00610.26 AA00
0713v7e_C_G73_A74AAAAA00640.24 AA00
0723v7e_C_A74_C75AAAAA00420.34 AA00
0733v7e_C_C75_G76AAAAA00730.17 AA00
0743v7e_C_G76_C77AAAAA00790.16 AA00
0753v7e_C_C77_U78AAAAA00870.14 AA00
0763v7e_C_U78_A79AAAAA00720.23 AA00
0773v7e_C_A79_G80AAAAA00700.21 AA00
0783v7e_C_G80_G81AAAAA00790.24 AA00
0793v7e_C_G81_C82AAAAA00310.28 AA00
0803v7e_C_C82_U83AAAAA00760.20 AA00
0813v7e_C_U83_A84AAAAA00500.24 AA00
0823v7e_C_A84_G85AAwAA01730.27 AA01
0833v7e_C_G85_U86AAwAA01480.28 AA01
0843v7e_C_U86_G87AAAAA08470.31 AA08
0853v7e_C_G87_G88AAAAA00640.37 AA00
0863v7e_C_G88_U89NANNANT00.74 AA11
0873v7e_C_U89_G90AAAAA04100.62 AA04
0883v7e_C_G90_C91AAAAA00570.27 AA00
0893v7e_C_C91_C92AAAAA00180.35 AA00
0903v7e_C_C92_A93NANNANT01.26 OP31
0913v7e_C_A93_A94AAwAA06570.37 AA06
0923v7e_C_A94_U95NANNANT00.79 OP05
0933v7e_C_U95_U96NANNANT01.55 OP04
0943v7e_C_U96_C97NANNANT00.88 OP14
0953v7e_C_C97_C98AAAAA00720.24 AA00
0963v7e_C_C98_U99AAAAA00850.22 AA00
0973v7e_C_U99_G100NANNANT00.56 AB04
0983v7e_C_G100_C101NANNANT00.48 OP12
0993v7e_C_C101_A102AAAAA00380.33 AA00
1003v7e_C_A102_G103AAwAA01800.28 AA01
1013v7e_C_G103_C104AAAAA00550.33 AA00
1023v7e_C_C104_G105AAAAA00600.26 AA00
1033v7e_C_G105_G106AAAAA00640.25 AA00
1043v7e_C_G106_A107NANNANT00.31 OP03
1053v7e_C_A107_A108AAAAA08490.34 AA08
1063v7e_C_A108_A109AAAAA00350.28 AA00
1073v7e_C_A109_C110NANNANT00.77 AA04
1083v7e_C_C110_G111AAAAA00740.20 AA00
1093v7e_C_G111_U112AAAAA00640.35 AA00
1103v7e_C_U112_U113AAuAA12670.28 AA12
1113v7e_C_U113_G114AAAAA08550.25 AA08
1123v7e_C_G114_A115AAwAA01440.33 AA01
1133v7e_C_A115_A116AAAAA00270.47 AA00
1143v7e_C_A116_A117AAAAA00420.39 AA00
1153v7e_C_A117_G118AAwAA01910.16 AA01
1163v7e_C_G118_A119AAAAA08880.19 AA08
1173v7e_C_A119_U120AAAAA08720.24 AA08
1183v7e_C_U120_G121AAAAA00600.15 AA00
1193v7e_C_G121_A122AAAAA00730.17 AA00
1203v7e_C_A122_G123AAAAA00670.17 AA00
1213v7e_C_G123_C124AAwAA01750.26 AA01
1223v7e_C_C124_C125AAAAA00460.34 AA00
1233v7e_C_C125_A126AAwAA01510.33 AA01
1243v7e_D_G201_G202AAAAA00250.31 AA00
1253v7e_D_G202_C203AAAAA00700.23 AA00
1263v7e_D_C203_U204AAAAA00700.23 AA00
1273v7e_D_U204_U205AAAAA00700.24 AA00
1283v7e_D_U205_A206AAAAA00750.25 AA00
1293v7e_D_A206_U207AAAAA00870.15 AA00
1303v7e_D_U207_C208AAAAA00830.15 AA00
1313v7e_D_A210_G211AAAAA00570.28 AA00
1323v7e_D_G211_A212AAAAA00500.36 AA00
1333v7e_D_A212_G213NANNANT00.91 OP06
1343v7e_D_G215_G216AAAAA00450.25 AA00
1353v7e_D_G216_U217AAwAA01720.17 AA01
1363v7e_D_U217_G218AAwAA11340.65 AA11
1373v7e_D_G218_G219NANNANT00.59 AA11
1383v7e_D_G219_A220NANNANT00.54 AA12
1393v7e_D_A220_G221NANNANT01.16 AB02
1403v7e_D_G221_G222AAAAA00580.32 AA00
1413v7e_D_G222_G223AAAAA00530.24 AA00
1423v7e_D_G223_A224NANNANT01.52 OP06
1433v7e_D_A224_C225AAAAA00130.27 AA00
1443v7e_D_C225_U226AAAAA00600.35 AA00
1453v7e_D_U226_G227AAAAA08650.41 AA08
1463v7e_D_G227_G228AAwAA01910.14 AA01
1473v7e_D_G228_C229AAAAA08750.29 AA08
1483v7e_D_C229_C230AAwAA01890.15 AA01
1493v7e_D_C230_C231AAAAA00630.26 AA00
1503v7e_D_C231_G232AAAAA00600.28 AA00
1513v7e_D_G232_A233NANNANT00.94 BB2S
1523v7e_D_A233_U234NANNANT02.03 OP09
1533v7e_D_U234_G235NANNANT02.00 OP08
1543v7e_D_G235_A236NANNANT00.77 AA07
1553v7e_D_A236_A237AAAAA00710.31 AA00
1563v7e_D_A237_A238AAAAA00240.46 AA00
1573v7e_D_A238_C239AAwAA01640.29 AA01
1583v7e_D_C239_C240AAAAA08470.34 AA08
1593v7e_D_C240_C241AAwAA01470.22 AA01
1603v7e_D_C241_G242AAAAA08640.54 AA08
1613v7e_D_G242_G243AAwAA01780.23 AA01
1623v7e_D_G243_C244AAAAA00590.25 AA00
1633v7e_D_C244_A245AAAAA00250.44 AA00
1643v7e_D_A245_A246NANNANT00.53 AB03
1653v7e_D_A246_C247NANNANT00.94 AA12
1663v7e_D_C247_C248AAAAA00620.27 AA00
1673v7e_D_C248_A249AAAAA00760.20 AA00
1683v7e_D_A249_C250AAwAA01690.26 AA01
1693v7e_D_C250_U251AAAAA00510.40 AA00
1703v7e_D_U251_A252AAAAA00480.26 AA00
1713v7e_D_A252_G253AAAAA00790.27 AA00
1723v7e_D_G253_U254AAAAA00330.37 AA00
1733v7e_D_U254_C255AAAAA00840.18 AA00
1743v7e_D_C255_U256AAAAA00730.20 AA00
1753v7e_D_U256_A257AAAAA00650.21 AA00
1763v7e_D_A257_G258AAAAA00840.15 AA00
1773v7e_D_G258_C259AAAAA00750.19 AA00
1783v7e_D_C259_G260AAAAA00560.23 AA00
1793v7e_D_G260_U261AAAAA00610.21 AA00
1803v7e_D_U261_C262AAwAA01720.20 AA01
1813v7e_D_C262_A263AAAAA0080.46 AA00
1823v7e_D_A263_G264AAwAA06490.37 AA06
1833v7e_D_G264_C265AAwAA01340.40 AA01
1843v7e_D_C265_U266AAAAA08230.68 AA08
1853v7e_D_U266_U267NANNANT01.38 OP30
1863v7e_D_U267_C268NANNANT02.06 OP26
1873v7e_D_C268_G269NANNANT02.24 IC04
1883v7e_D_G269_G270NANNANT01.17 AAS1
1893v7e_D_G270_C271AAwAA06730.28 AA06
1903v7e_D_C271_U272AAAAA00670.34 AA00
1913v7e_D_U272_G273AAAAA00760.19 AA00
1923v7e_D_G273_A274AAAAA00580.23 AA00
1933v7e_D_A274_C275AAAAA00610.25 AA00
1943v7e_D_C275_G276AAAAA08740.35 AA08
1953v7e_D_G276_C277AAAAA00600.23 AA00
1963v7e_D_C277_U278AAAAA00500.25 AA00
1973v7e_D_U278_A279AAAAA00710.20 AA00
1983v7e_D_A279_G280AAAAA00840.13 AA00
1993v7e_D_G280_G281AAAAA00790.22 AA00
2003v7e_D_G281_C282AAAAA00790.20 AA00
2013v7e_D_C282_U283AAAAA00830.19 AA00
2023v7e_D_U283_A284AAAAA00880.14 AA00
2033v7e_D_A284_G285AAAAA00870.17 AA00
2043v7e_D_G285_U286AAAAA00660.25 AA00
2053v7e_D_U286_G287NANNANT00.63 AA11
2063v7e_D_G287_G288AAAAA00260.42 AA00
2073v7e_D_G288_U289NANNANT00.60 AA06
2083v7e_D_U289_G290AAAAA04170.63 AA04
2093v7e_D_G290_C291AAAAA00600.28 AA00
2103v7e_D_C291_C292AAAAA00350.37 AA00
2113v7e_D_C292_A293NANNANT01.31 OP31
2123v7e_D_A293_A294AAAAA04580.40 AA04
2133v7e_D_A294_U295NANNANT01.53 OP03
2143v7e_D_U295_U296NANNANT01.37 OP04
2153v7e_D_U296_C297NANNANT00.83 OP14
2163v7e_D_C297_C298AAAAA00800.21 AA00
2173v7e_D_C298_U299AAAAA00810.23 AA00
2183v7e_D_U299_G300AAAAA00300.60 AA00
2193v7e_D_G300_C301NANNANT00.50 OP12
2203v7e_D_C301_A302AAAAA00380.31 AA00
2213v7e_D_A302_G303AAwAA01610.31 AA01
2223v7e_D_G303_C304AAAAA00230.30 AA00
2233v7e_D_C304_G305AAAAA00410.29 AA00
2243v7e_D_G305_G306AAAAA00410.37 AA00
2253v7e_D_G306_A307NANNANT00.26 OP03
2263v7e_D_A307_A308AAAAA08800.33 AA08
2273v7e_D_A308_A309AAAAA00540.25 AA00
2283v7e_D_A309_C310NANNANT00.85 AA04
2293v7e_D_C310_G311AAAAA00810.22 AA00
2303v7e_D_G311_U312AAwAA01330.26 AA01
2313v7e_D_U312_U313AAAAA03570.38 AA03
2323v7e_D_U313_G314AAAAA03730.14 AA03
2333v7e_D_G314_A315AAwAA01540.26 AA01
2343v7e_D_A315_A316AAwAA11690.36 AA11
2353v7e_D_A316_A317AAAAA08590.51 AA08
2363v7e_D_A317_G318AAwAA01850.12 AA01
2373v7e_D_G318_A319AAAAA08860.16 AA08
2383v7e_D_A319_U320AAAAA00800.18 AA00
2393v7e_D_U320_G321AAAAA00670.20 AA00
2403v7e_D_G321_A322AAAAA00870.19 AA00
2413v7e_D_A322_G323AAAAA00620.20 AA00
2423v7e_D_G323_C324AAwAA01790.23 AA01
2433v7e_D_C324_C325AAAAA00440.49 AA00
2443v7e_D_C325_A326AAAAA00780.16 AA00

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).

Browse conformers

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