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Conformers: ABBIImiBZICOPNSYNN
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Solution structure and dynamics of the apical stem-loop of Duck hepatitis B virus

Results of the assignment of 280 detected steps in 10 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
0012k5z-m10_A_G1_G2AAAAA00530.30 AA00
0022k5z-m1_A_G1_G2AAAAA00770.23 AA00
0032k5z-m2_A_G1_G2AAAAA00770.24 AA00
0042k5z-m3_A_G1_G2AAAAA00850.22 AA00
0052k5z-m4_A_G1_G2AAAAA08600.20 AA08
0062k5z-m5_A_G1_G2AAAAA08490.26 AA08
0072k5z-m6_A_G1_G2AAAAA00620.26 AA00
0082k5z-m7_A_G1_G2AAAAA00550.29 AA00
0092k5z-m8_A_G1_G2AAAAA00710.31 AA00
0102k5z-m9_A_G1_G2AAAAA08400.32 AA08
0112k5z-m10_A_G2_U3AAAAA00630.35 AA00
0122k5z-m1_A_G2_U3AAAAA00670.29 AA00
0132k5z-m2_A_G2_U3AAAAA00450.36 AA00
0142k5z-m3_A_G2_U3AAAAA00580.32 AA00
0152k5z-m4_A_G2_U3AAAAA00390.36 AA00
0162k5z-m5_A_G2_U3AAAAA00590.31 AA00
0172k5z-m6_A_G2_U3AAAAA00750.32 AA00
0182k5z-m7_A_G2_U3AAAAA00540.30 AA00
0192k5z-m8_A_G2_U3AAAAA00600.32 AA00
0202k5z-m9_A_G2_U3AAAAA00460.39 AA00
0212k5z-m10_A_U3_C4AAAAA00550.36 AA00
0222k5z-m1_A_U3_C4AAAAA00490.37 AA00
0232k5z-m2_A_U3_C4AAAAA00470.38 AA00
0242k5z-m3_A_U3_C4AAAAA04790.21 AA04
0252k5z-m4_A_U3_C4AAAAA00440.39 AA00
0262k5z-m5_A_U3_C4AAAAA00660.30 AA00
0272k5z-m6_A_U3_C4AAAAA00350.36 AA00
0282k5z-m7_A_U3_C4AAAAA00240.42 AA00
0292k5z-m8_A_U3_C4AAAAA00490.34 AA00
0302k5z-m9_A_U3_C4AAAAA00780.28 AA00
0312k5z-m10_A_C4_U5AAAAA00220.51 AA00
0322k5z-m1_A_C4_U5AAAAA04630.48 AA04
0332k5z-m2_A_C4_U5AAAAA04600.43 AA04
0342k5z-m3_A_C4_U5AAAAA04430.52 AA04
0352k5z-m4_A_C4_U5AAAAA04700.47 AA04
0362k5z-m5_A_C4_U5AAAAA04510.50 AA04
0372k5z-m6_A_C4_U5AAAAA00370.37 AA00
0382k5z-m7_A_C4_U5AAAAA00170.54 AA00
0392k5z-m8_A_C4_U5AAAAA00460.42 AA00
0402k5z-m9_A_C4_U5AAAAA00340.45 AA00
0412k5z-m10_A_U5_A6AAAAA08370.48 AA08
0422k5z-m1_A_U5_A6AAAAA08360.45 AA08
0432k5z-m2_A_U5_A6AAAAA00550.30 AA00
0442k5z-m3_A_U5_A6AAAAA00590.32 AA00
0452k5z-m4_A_U5_A6AAAAA08450.40 AA08
0462k5z-m5_A_U5_A6AAAAA00770.19 AA00
0472k5z-m6_A_U5_A6AAAAA00320.36 AA00
0482k5z-m7_A_U5_A6AAAAA08310.49 AA08
0492k5z-m8_A_U5_A6AAAAA08550.36 AA08
0502k5z-m9_A_U5_A6AAAAA08320.48 AA08
0512k5z-m10_A_A6_C7AAAAA00480.39 AA00
0522k5z-m1_A_A6_C7AAAAA00640.32 AA00
0532k5z-m2_A_A6_C7AAAAA00630.30 AA00
0542k5z-m3_A_A6_C7AAAAA00570.28 AA00
0552k5z-m4_A_A6_C7AAAAA00640.34 AA00
0562k5z-m5_A_A6_C7AAAAA00570.29 AA00
0572k5z-m6_A_A6_C7AAAAA00570.33 AA00
0582k5z-m7_A_A6_C7AAAAA00660.31 AA00
0592k5z-m8_A_A6_C7AAAAA00720.28 AA00
0602k5z-m9_A_A6_C7AAAAA00720.31 AA00
0612k5z-m10_A_C7_A8AAAAA04940.25 AA04
0622k5z-m1_A_C7_A8AAAAA00370.28 AA00
0632k5z-m2_A_C7_A8AAAAA00650.33 AA00
0642k5z-m3_A_C7_A8AAAAA08580.24 AA08
0652k5z-m4_A_C7_A8AAAAA00630.28 AA00
0662k5z-m5_A_C7_A8AAAAA04860.22 AA04
0672k5z-m6_A_C7_A8AAAAA00360.29 AA00
0682k5z-m7_A_C7_A8AAAAA08660.24 AA08
0692k5z-m8_A_C7_A8AAAAA00470.32 AA00
0702k5z-m9_A_C7_A8AAAAA04890.26 AA04
0712k5z-m10_A_A8_U9AAAAA04190.54 AA04
0722k5z-m1_A_A8_U9AAAAA00190.36 AA00
0732k5z-m2_A_A8_U9AAAAA00290.36 AA00
0742k5z-m3_A_A8_U9AAAAA04280.45 AA04
0752k5z-m4_A_A8_U9AAAAA04250.47 AA04
0762k5z-m5_A_A8_U9AAAAA00140.39 AA00
0772k5z-m6_A_A8_U9AAAAA00270.37 AA00
0782k5z-m7_A_A8_U9AAAAA00210.37 AA00
0792k5z-m8_A_A8_U9AAAAA00200.40 AA00
0802k5z-m9_A_A8_U9AAAAA00340.38 AA00
0812k5z-m10_A_U9_U10AAuAA12520.38 AA12
0822k5z-m1_A_U9_U10AAuAA12170.46 AA12
0832k5z-m2_A_U9_U10AAuAA12170.41 AA12
0842k5z-m3_A_U9_U10NANNANT00.47 AA12
0852k5z-m4_A_U9_U10AAuAA12460.39 AA12
0862k5z-m5_A_U9_U10AAuAA12400.39 AA12
0872k5z-m6_A_U9_U10NANNANT00.46 AA12
0882k5z-m7_A_U9_U10NANNANT00.49 AA12
0892k5z-m8_A_U9_U10NANNANT00.47 AA12
0902k5z-m9_A_U9_U10AAuAA12690.31 AA12
0912k5z-m10_A_U10_G11AAAAA00140.57 AA00
0922k5z-m1_A_U10_G11AAAAA0090.55 AA00
0932k5z-m2_A_U10_G11AAAAA00130.55 AA00
0942k5z-m3_A_U10_G11AAAAA00150.52 AA00
0952k5z-m4_A_U10_G11AAAAA00130.54 AA00
0962k5z-m5_A_U10_G11AAAAA00180.52 AA00
0972k5z-m6_A_U10_G11AAAAA00140.53 AA00
0982k5z-m7_A_U10_G11AAAAA00110.55 AA00
0992k5z-m8_A_U10_G11AAAAA08210.51 AA08
1002k5z-m9_A_U10_G11AAAAA00420.44 AA00
1012k5z-m10_A_G11_C12AAAAA00580.45 AA00
1022k5z-m1_A_G11_C12AAAAA00560.43 AA00
1032k5z-m2_A_G11_C12AAAAA00510.45 AA00
1042k5z-m3_A_G11_C12AAAAA04850.44 AA04
1052k5z-m4_A_G11_C12AAAAA00380.43 AA00
1062k5z-m5_A_G11_C12AAAAA00540.45 AA00
1072k5z-m6_A_G11_C12AAAAA04830.45 AA04
1082k5z-m7_A_G11_C12AAAAA04820.41 AA04
1092k5z-m8_A_G11_C12AAAAA00580.42 AA00
1102k5z-m9_A_G11_C12AAAAA00450.47 AA00
1112k5z-m10_A_C12_U13NANNANT00.56 AA04
1122k5z-m1_A_C12_U13AAAAA04760.36 AA04
1132k5z-m2_A_C12_U13AAAAA00290.38 AA00
1142k5z-m3_A_C12_U13AAAAA00290.46 AA00
1152k5z-m4_A_C12_U13AAAAA00420.35 AA00
1162k5z-m5_A_C12_U13NANNANT00.54 AA04
1172k5z-m6_A_C12_U13AAAAA04680.40 AA04
1182k5z-m7_A_C12_U13AAAAA04740.47 AA04
1192k5z-m8_A_C12_U13NANNANT00.54 AA04
1202k5z-m9_A_C12_U13NANNANT00.54 AA04
1212k5z-m10_A_U13_G14NANNANT00.60 AB04
1222k5z-m1_A_U13_G14NANNANT00.76 AA12
1232k5z-m2_A_U13_G14NANNANT00.68 AA00
1242k5z-m3_A_U13_G14NANNANT00.65 AA04
1252k5z-m4_A_U13_G14NANNANT00.45 AB04
1262k5z-m5_A_U13_G14NANNANT00.72 AB04
1272k5z-m6_A_U13_G14NANNANT00.47 AB04
1282k5z-m7_A_U13_G14NANNANT00.47 AB04
1292k5z-m8_A_U13_G14NANNANT00.59 AB04
1302k5z-m9_A_U13_G14NANNANT00.63 AB05
1312k5z-m10_A_G14_U15NANNANT01.93 OP06
1322k5z-m1_A_G14_U15NANNANT01.60 OP17
1332k5z-m2_A_G14_U15NANNANT00.89 OP30
1342k5z-m3_A_G14_U15NANNANT02.34 OP09
1352k5z-m4_A_G14_U15NANNANT01.79 OP17
1362k5z-m5_A_G14_U15NANNANT01.26 OP13
1372k5z-m6_A_G14_U15NANNANT01.54 OP23
1382k5z-m7_A_G14_U15NANNANT00.40 OP16
1392k5z-m8_A_G14_U15NANNANT01.78 OP17
1402k5z-m9_A_G14_U15NANNANT00.95 OP16
1412k5z-m10_A_U15_U16NANNANT01.42 IC04
1422k5z-m1_A_U15_U16NANNANT02.31 OP23
1432k5z-m2_A_U15_U16NANNANT01.93 IC04
1442k5z-m3_A_U15_U16NANNANT02.13 IC04
1452k5z-m4_A_U15_U16NANNANT01.70 BB11
1462k5z-m5_A_U15_U16NANNANT01.73 IC04
1472k5z-m6_A_U15_U16NANNANT01.14 OP19
1482k5z-m7_A_U15_U16NANNANT02.36 BB11
1492k5z-m8_A_U15_U16NANNANT01.49 IC04
1502k5z-m9_A_U15_U16NANNANT00.97 OP19
1512k5z-m10_A_U16_G17NANNANT00.38 BA01
1522k5z-m1_A_U16_G17NANNANT00.48 BA08
1532k5z-m2_A_U16_G17NANNANT00.47 BA08
1542k5z-m3_A_U16_G17NANNANT00.44 BA08
1552k5z-m4_A_U16_G17NANNANT00.51 BA08
1562k5z-m5_A_U16_G17NANNANT00.40 BA08
1572k5z-m6_A_U16_G17NANNANT00.40 BA01
1582k5z-m7_A_U16_G17NANNANT00.45 BA05
1592k5z-m8_A_U16_G17NANNANT00.60 BA08
1602k5z-m9_A_U16_G17NANNANT00.56 BA08
1612k5z-m10_A_G17_U18AAAAA00700.32 AA00
1622k5z-m1_A_G17_U18AAAAA00620.31 AA00
1632k5z-m2_A_G17_U18AAAAA00630.31 AA00
1642k5z-m3_A_G17_U18AAAAA00340.39 AA00
1652k5z-m4_A_G17_U18AAAAA00560.32 AA00
1662k5z-m5_A_G17_U18AAAAA00620.31 AA00
1672k5z-m6_A_G17_U18AAAAA00640.31 AA00
1682k5z-m7_A_G17_U18AAAAA00370.37 AA00
1692k5z-m8_A_G17_U18AAAAA00390.37 AA00
1702k5z-m9_A_G17_U18AAAAA00720.28 AA00
1712k5z-m10_A_U18_C19AAAAA00610.37 AA00
1722k5z-m1_A_U18_C19AAAAA00270.43 AA00
1732k5z-m2_A_U18_C19AAAAA00250.43 AA00
1742k5z-m3_A_U18_C19AAAAA00350.45 AA00
1752k5z-m4_A_U18_C19AAAAA00210.42 AA00
1762k5z-m5_A_U18_C19AAAAA00550.37 AA00
1772k5z-m6_A_U18_C19AAAAA00480.41 AA00
1782k5z-m7_A_U18_C19AAAAA00310.46 AA00
1792k5z-m8_A_U18_C19AAAAA00210.48 AA00
1802k5z-m9_A_U18_C19AAAAA00230.42 AA00
1812k5z-m10_A_C19_G20AAAAA08370.32 AA08
1822k5z-m1_A_C19_G20AAAAA04800.24 AA04
1832k5z-m2_A_C19_G20AAAAA04630.34 AA04
1842k5z-m3_A_C19_G20AAAAA04700.32 AA04
1852k5z-m4_A_C19_G20AAAAA08450.36 AA08
1862k5z-m5_A_C19_G20AAAAA08290.41 AA08
1872k5z-m6_A_C19_G20AAAAA04660.31 AA04
1882k5z-m7_A_C19_G20AAAAA04630.35 AA04
1892k5z-m8_A_C19_G20AAAAA00330.27 AA00
1902k5z-m9_A_C19_G20AAAAA04760.27 AA04
1912k5z-m10_A_G20_U21AAAAA04690.43 AA04
1922k5z-m1_A_G20_U21AAAAA04720.41 AA04
1932k5z-m2_A_G20_U21AAAAA04710.43 AA04
1942k5z-m3_A_G20_U21AAAAA04730.41 AA04
1952k5z-m4_A_G20_U21AAAAA04740.44 AA04
1962k5z-m5_A_G20_U21AAAAA04690.43 AA04
1972k5z-m6_A_G20_U21AAAAA04680.42 AA04
1982k5z-m7_A_G20_U21AAAAA04740.39 AA04
1992k5z-m8_A_G20_U21AAAAA00430.32 AA00
2002k5z-m9_A_G20_U21AAAAA04730.42 AA04
2012k5z-m10_A_U21_G22AAAAA00700.25 AA00
2022k5z-m1_A_U21_G22AAAAA08720.26 AA08
2032k5z-m2_A_U21_G22AAAAA00630.29 AA00
2042k5z-m3_A_U21_G22AAAAA08690.26 AA08
2052k5z-m4_A_U21_G22AAAAA00730.27 AA00
2062k5z-m5_A_U21_G22AAAAA00640.27 AA00
2072k5z-m6_A_U21_G22AAAAA00770.23 AA00
2082k5z-m7_A_U21_G22AAAAA00620.27 AA00
2092k5z-m8_A_U21_G22AAAAA04740.29 AA04
2102k5z-m9_A_U21_G22AAAAA04660.33 AA04
2112k5z-m10_A_G22_U23AAAAA00350.29 AA00
2122k5z-m1_A_G22_U23AAAAA00560.28 AA00
2132k5z-m2_A_G22_U23AAAAA00320.31 AA00
2142k5z-m3_A_G22_U23AAAAA00670.27 AA00
2152k5z-m4_A_G22_U23AAAAA00390.30 AA00
2162k5z-m5_A_G22_U23AAAAA00460.29 AA00
2172k5z-m6_A_G22_U23AAAAA00570.28 AA00
2182k5z-m7_A_G22_U23AAAAA00510.29 AA00
2192k5z-m8_A_G22_U23AAAAA00440.26 AA00
2202k5z-m9_A_G22_U23AAAAA00190.33 AA00
2212k5z-m10_A_U23_G24AAAAA08610.25 AA08
2222k5z-m1_A_U23_G24AAAAA00660.26 AA00
2232k5z-m2_A_U23_G24AAAAA00840.24 AA00
2242k5z-m3_A_U23_G24AAAAA00650.26 AA00
2252k5z-m4_A_U23_G24AAAAA00870.24 AA00
2262k5z-m5_A_U23_G24AAAAA00850.25 AA00
2272k5z-m6_A_U23_G24AAAAA08720.28 AA08
2282k5z-m7_A_U23_G24AAAAA08800.26 AA08
2292k5z-m8_A_U23_G24AAAAA00760.25 AA00
2302k5z-m9_A_U23_G24AAAAA00820.24 AA00
2312k5z-m10_A_G24_U25NANNANT01.19 AB2S
2322k5z-m1_A_G24_U25NANNANT01.40 BB1S
2332k5z-m2_A_G24_U25NANNANT00.71 OP09
2342k5z-m3_A_G24_U25NANNANT01.51 BB1S
2352k5z-m4_A_G24_U25NANNANT00.83 OP09
2362k5z-m5_A_G24_U25NANNANT01.81 IC01
2372k5z-m6_A_G24_U25NANNANT00.91 OP03
2382k5z-m7_A_G24_U25NANNANT01.98 AB2S
2392k5z-m8_A_G24_U25NANNANT01.17 AB2S
2402k5z-m9_A_G24_U25NANNANT00.82 AB2S
2412k5z-m10_A_U25_G26NANNANT00.78 OP02
2422k5z-m1_A_U25_G26NANNANT00.82 OPS1
2432k5z-m2_A_U25_G26NANNANT01.11 OPS1
2442k5z-m3_A_U25_G26NANNANT00.67 OPS1
2452k5z-m4_A_U25_G26NANNANT01.24 OPS1
2462k5z-m5_A_U25_G26NANNANT00.83 OPS1
2472k5z-m6_A_U25_G26NANNANT01.35 OPS1
2482k5z-m7_A_U25_G26NANNANT00.79 OPS1
2492k5z-m8_A_U25_G26NANNANT00.78 OP01
2502k5z-m9_A_U25_G26NANNANT00.57 OP15
2512k5z-m10_A_G26_A27AAAAA00360.32 AA00
2522k5z-m1_A_G26_A27AAAAA00670.26 AA00
2532k5z-m2_A_G26_A27AAAAA00680.27 AA00
2542k5z-m3_A_G26_A27AAAAA00770.22 AA00
2552k5z-m4_A_G26_A27AAAAA00510.29 AA00
2562k5z-m5_A_G26_A27AAAAA00690.23 AA00
2572k5z-m6_A_G26_A27AAAAA00780.24 AA00
2582k5z-m7_A_G26_A27AAAAA00560.29 AA00
2592k5z-m8_A_G26_A27AAAAA00520.28 AA00
2602k5z-m9_A_G26_A27AAAAA08330.33 AA08
2612k5z-m10_A_A27_C28AAAAA00970.18 AA00
2622k5z-m1_A_A27_C28AAAAA00810.21 AA00
2632k5z-m2_A_A27_C28AAAAA00970.20 AA00
2642k5z-m3_A_A27_C28AAAAA00900.17 AA00
2652k5z-m4_A_A27_C28AAAAA00790.27 AA00
2662k5z-m5_A_A27_C28AAAAA00890.21 AA00
2672k5z-m6_A_A27_C28AAAAA00690.22 AA00
2682k5z-m7_A_A27_C28AAAAA00730.17 AA00
2692k5z-m8_A_A27_C28AAAAA00940.19 AA00
2702k5z-m9_A_A27_C28AAAAA00650.29 AA00
2712k5z-m10_A_C28_C29AAAAA00860.24 AA00
2722k5z-m1_A_C28_C29AAAAA00870.24 AA00
2732k5z-m2_A_C28_C29AAAAA00740.27 AA00
2742k5z-m3_A_C28_C29AAAAA00930.22 AA00
2752k5z-m4_A_C28_C29AAAAA00680.29 AA00
2762k5z-m5_A_C28_C29AAAAA00910.26 AA00
2772k5z-m6_A_C28_C29AAAAA00930.21 AA00
2782k5z-m7_A_C28_C29AAAAA00490.28 AA00
2792k5z-m8_A_C28_C29AAAAA00750.24 AA00
2802k5z-m9_A_C28_C29AAAAA00630.27 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

Return up to random steps in PDB structures ( include large structures )

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