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Conformers: ABBIImiBZICOPNSYNN
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Solution structure of the complex formed by the two N-terminal RNA-binding domains of nucleolin and a pre-rRNA target

Results of the assignment of 280 detected steps in 14 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
0011rkj-m10_B_G1_G2AAuAA12180.47 AA12
0021rkj-m11_B_G1_G2AAuAA12180.47 AA12
0031rkj-m12_B_G1_G2NANNANT00.44 AA00
0041rkj-m13_B_G1_G2NANNANT00.44 AA00
0051rkj-m14_B_G1_G2NANNANT00.47 AA00
0061rkj-m1_B_G1_G2AAuAA12170.47 AA12
0071rkj-m2_B_G1_G2AAuAA12180.48 AA12
0081rkj-m3_B_G1_G2AAuAA12180.47 AA12
0091rkj-m4_B_G1_G2NANNANT00.44 AA00
0101rkj-m5_B_G1_G2NANNANT00.44 AA00
0111rkj-m6_B_G1_G2NANNANT00.43 AA00
0121rkj-m7_B_G1_G2AAuAA12170.34 AA12
0131rkj-m8_B_G1_G2AAuAA12170.49 AA12
0141rkj-m9_B_G1_G2AAuAA12180.47 AA12
0151rkj-m10_B_G2_A3AAAAA00360.40 AA00
0161rkj-m11_B_G2_A3AAAAA00360.40 AA00
0171rkj-m12_B_G2_A3AAAAA00260.40 AA00
0181rkj-m13_B_G2_A3AAAAA00250.40 AA00
0191rkj-m14_B_G2_A3AAAAA00330.38 AA00
0201rkj-m1_B_G2_A3AAAAA00330.38 AA00
0211rkj-m2_B_G2_A3AAAAA00410.41 AA00
0221rkj-m3_B_G2_A3AAAAA00370.40 AA00
0231rkj-m4_B_G2_A3AAAAA00240.40 AA00
0241rkj-m5_B_G2_A3AAAAA00240.41 AA00
0251rkj-m6_B_G2_A3AAAAA00310.40 AA00
0261rkj-m7_B_G2_A3AAAAA00420.38 AA00
0271rkj-m8_B_G2_A3AAAAA00380.40 AA00
0281rkj-m9_B_G2_A3AAAAA00360.41 AA00
0291rkj-m10_B_A3_U4AAAAA00110.42 AA00
0301rkj-m11_B_A3_U4AAAAA0080.43 AA00
0311rkj-m12_B_A3_U4AAAAA00140.42 AA00
0321rkj-m13_B_A3_U4AAAAA04490.37 AA04
0331rkj-m14_B_A3_U4AAAAA00150.45 AA00
0341rkj-m1_B_A3_U4AAAAA00160.43 AA00
0351rkj-m2_B_A3_U4AAAAA00160.43 AA00
0361rkj-m3_B_A3_U4AAAAA0090.43 AA00
0371rkj-m4_B_A3_U4AAAAA00140.42 AA00
0381rkj-m5_B_A3_U4AAAAA0080.41 AA00
0391rkj-m6_B_A3_U4AAAAA0090.44 AA00
0401rkj-m7_B_A3_U4AAAAA00180.43 AA00
0411rkj-m8_B_A3_U4AAAAA00110.44 AA00
0421rkj-m9_B_A3_U4AAAAA0080.42 AA00
0431rkj-m10_B_U4_G5AAAAA04240.45 AA04
0441rkj-m11_B_U4_G5AAAAA0060.37 AA00
0451rkj-m12_B_U4_G5AAAAA00160.36 AA00
0461rkj-m13_B_U4_G5AAAAA0080.39 AA00
0471rkj-m14_B_U4_G5AAAAA00100.36 AA00
0481rkj-m1_B_U4_G5AAAAA00100.36 AA00
0491rkj-m2_B_U4_G5AAAAA00100.36 AA00
0501rkj-m3_B_U4_G5AAAAA00100.36 AA00
0511rkj-m4_B_U4_G5AAAAA00100.37 AA00
0521rkj-m5_B_U4_G5AAAAA00100.35 AA00
0531rkj-m6_B_U4_G5AAAAA0060.38 AA00
0541rkj-m7_B_U4_G5AAAAA00110.37 AA00
0551rkj-m8_B_U4_G5AAAAA04250.44 AA04
0561rkj-m9_B_U4_G5AAAAA04260.47 AA04
0571rkj-m10_B_G5_C6AAAAA0080.60 AA00
0581rkj-m11_B_G5_C6AAAAA00100.59 AA00
0591rkj-m12_B_G5_C6AAAAA00140.54 AA00
0601rkj-m13_B_G5_C6AAAAA00130.54 AA00
0611rkj-m14_B_G5_C6AAAAA00110.60 AA00
0621rkj-m1_B_G5_C6AAAAA0080.60 AA00
0631rkj-m2_B_G5_C6AAAAA00110.60 AA00
0641rkj-m3_B_G5_C6AAAAA04310.57 AA04
0651rkj-m4_B_G5_C6AAAAA08120.58 AA08
0661rkj-m5_B_G5_C6AAAAA04400.54 AA04
0671rkj-m6_B_G5_C6AAAAA08110.58 AA08
0681rkj-m7_B_G5_C6AAAAA00120.61 AA00
0691rkj-m8_B_G5_C6AAAAA0080.60 AA00
0701rkj-m9_B_G5_C6AAAAA04380.55 AA04
0711rkj-m10_B_C6_C7AAwAA06190.49 AA06
0721rkj-m11_B_C6_C7AAAAA00350.35 AA00
0731rkj-m12_B_C6_C7AAAAA04330.36 AA04
0741rkj-m13_B_C6_C7NANNANT00.47 AA04
0751rkj-m14_B_C6_C7AAAAA04360.54 AA04
0761rkj-m1_B_C6_C7AAwAA01450.51 AA01
0771rkj-m2_B_C6_C7AAAAA00450.37 AA00
0781rkj-m3_B_C6_C7AAAAA04370.49 AA04
0791rkj-m4_B_C6_C7AAAAA04440.48 AA04
0801rkj-m5_B_C6_C7AAAAA03210.37 AA03
0811rkj-m6_B_C6_C7AAAAA00100.34 AA00
0821rkj-m7_B_C6_C7AAAAA03320.34 AA03
0831rkj-m8_B_C6_C7AAAAA00270.38 AA00
0841rkj-m9_B_C6_C7NANNANT00.45 AA04
0851rkj-m10_B_C7_U8NANNANT01.35 OP01
0861rkj-m11_B_C7_U8NANNANT01.42 OP01
0871rkj-m12_B_C7_U8NANNANT02.13 OP23
0881rkj-m13_B_C7_U8NANNANT01.75 OP19
0891rkj-m14_B_C7_U8NANNANT01.71 OP01
0901rkj-m1_B_C7_U8NANNANT01.58 OP01
0911rkj-m2_B_C7_U8NANNANT01.65 OP01
0921rkj-m3_B_C7_U8NANNANT01.62 OP01
0931rkj-m4_B_C7_U8NANNANT01.69 OP01
0941rkj-m5_B_C7_U8NANNANT02.40 OP24
0951rkj-m6_B_C7_U8NANNANT01.35 OP17
0961rkj-m7_B_C7_U8NANNANT01.62 OP17
0971rkj-m8_B_C7_U8NANNANT01.07 OP29
0981rkj-m9_B_C7_U8NANNANT01.59 OP01
0991rkj-m10_B_U8_C9NANNANT00.42 OP12
1001rkj-m11_B_U8_C9NANNANT02.08 OP16
1011rkj-m12_B_U8_C9NANNANT02.09 OP27
1021rkj-m13_B_U8_C9NANNANT00.80 OP12
1031rkj-m14_B_U8_C9NANNANT01.54 OP24
1041rkj-m1_B_U8_C9NANNANT00.89 BA01
1051rkj-m2_B_U8_C9NANNANT01.07 BA08
1061rkj-m3_B_U8_C9NANNANT01.69 OP24
1071rkj-m4_B_U8_C9NANNANT01.62 OP24
1081rkj-m5_B_U8_C9NANNANT00.48 OP12
1091rkj-m6_B_U8_C9NANNANT01.01 BA08
1101rkj-m7_B_U8_C9NANNANT00.90 BA17
1111rkj-m8_B_U8_C9NANNANT00.69 BA01
1121rkj-m9_B_U8_C9NANNANT00.56 OP12
1131rkj-m10_B_C9_C10NANNANT00.62 AA10
1141rkj-m11_B_C9_C10AAwAA11150.86 AA11
1151rkj-m12_B_C9_C10NANNANT00.90 AA01
1161rkj-m13_B_C9_C10NANNANT00.89 AA04
1171rkj-m14_B_C9_C10NANNANT00.83 AA11
1181rkj-m1_B_C9_C10AAwAA11300.68 AA11
1191rkj-m2_B_C9_C10AAwAA11220.61 AA11
1201rkj-m3_B_C9_C10NANNANT01.12 AA10
1211rkj-m4_B_C9_C10NANNANT01.18 AA10
1221rkj-m5_B_C9_C10NANNANT00.59 AA05
1231rkj-m6_B_C9_C10NANNANT01.01 AA10
1241rkj-m7_B_C9_C10NANNANT01.07 AA10
1251rkj-m8_B_C9_C10NANNANT00.96 AA10
1261rkj-m9_B_C9_C10NANNANT01.00 AA10
1271rkj-m10_B_C10_C11NANNANT01.30 OP05
1281rkj-m11_B_C10_C11NANNANT01.76 OP31
1291rkj-m12_B_C10_C11NANNANT02.05 OP06
1301rkj-m13_B_C10_C11NANNANT01.94 OP09
1311rkj-m14_B_C10_C11NANNANT00.53 OP29
1321rkj-m1_B_C10_C11NANNANT00.93 OP17
1331rkj-m2_B_C10_C11NANNANT02.02 IC04
1341rkj-m3_B_C10_C11NANNANT00.61 OP29
1351rkj-m4_B_C10_C11NANNANT00.78 OP29
1361rkj-m5_B_C10_C11NANNANT01.17 OP17
1371rkj-m6_B_C10_C11NANNANT01.14 OP09
1381rkj-m7_B_C10_C11NANNANT01.75 OP09
1391rkj-m8_B_C10_C11NANNANT01.38 OP17
1401rkj-m9_B_C10_C11NANNANT01.35 OP05
1411rkj-m10_B_C11_G12NANNANT01.10 OP26
1421rkj-m11_B_C11_G12NANNANT01.10 OP14
1431rkj-m12_B_C11_G12NANNANT01.05 OP16
1441rkj-m13_B_C11_G12NANNANT02.51 ZZ2S
1451rkj-m14_B_C11_G12NANNANT01.04 OP16
1461rkj-m1_B_C11_G12NANNANT02.58 OP1S
1471rkj-m2_B_C11_G12NANNANT01.47 BB1S
1481rkj-m3_B_C11_G12NANNANT02.04 BB2S
1491rkj-m4_B_C11_G12NANNANT01.66 BB17
1501rkj-m5_B_C11_G12NANNANT01.11 OP26
1511rkj-m6_B_C11_G12NANNANT02.24 OP1S
1521rkj-m7_B_C11_G12NANNANT01.76 OP26
1531rkj-m8_B_C11_G12NANNANT01.08 OP16
1541rkj-m9_B_C11_G12NANNANT00.99 OP26
1551rkj-m10_B_G12_A13NANNANT01.97 AA10
1561rkj-m11_B_G12_A13NANNANT00.98 OP17
1571rkj-m12_B_G12_A13NANNANT01.30 OP29
1581rkj-m13_B_G12_A13NANNANT01.70 OP09
1591rkj-m14_B_G12_A13NANNANT01.31 OPS1
1601rkj-m1_B_G12_A13NANNANT01.97 OPS1
1611rkj-m2_B_G12_A13NANNANT01.18 OP18
1621rkj-m3_B_G12_A13NANNANT02.00 OP24
1631rkj-m4_B_G12_A13NANNANT01.99 BB02
1641rkj-m5_B_G12_A13NANNANT02.18 IC07
1651rkj-m6_B_G12_A13NANNANT01.89 OP18
1661rkj-m7_B_G12_A13NANNANT01.52 OPS1
1671rkj-m8_B_G12_A13NANNANT01.95 OPS1
1681rkj-m9_B_G12_A13NANNANT01.86 IC07
1691rkj-m10_B_A13_G14NANNANT00.73 BB14
1701rkj-m11_B_A13_G14NANNANT00.56 AB02
1711rkj-m12_B_A13_G14NANNANT00.78 BB08
1721rkj-m13_B_A13_G14NANNANT00.88 AB02
1731rkj-m14_B_A13_G14NANNANT00.74 AB03
1741rkj-m1_B_A13_G14NANNANT01.20 BB12
1751rkj-m2_B_A13_G14NANNANT01.10 AB02
1761rkj-m3_B_A13_G14NANNANT00.69 IC04
1771rkj-m4_B_A13_G14NANNANT01.42 BB03
1781rkj-m5_B_A13_G14NANNANT01.28 BB02
1791rkj-m6_B_A13_G14NANNANT01.07 BB05
1801rkj-m7_B_A13_G14NANNANT00.98 AB02
1811rkj-m8_B_A13_G14NANNANT00.92 AB02
1821rkj-m9_B_A13_G14NANNANT00.52 AB02
1831rkj-m10_B_G14_U15NANNANT00.72 OP13
1841rkj-m11_B_G14_U15NANNANT00.75 OP30
1851rkj-m12_B_G14_U15NANNANT02.06 OP19
1861rkj-m13_B_G14_U15NANNANT01.42 OP17
1871rkj-m14_B_G14_U15NANNANT01.30 OP05
1881rkj-m1_B_G14_U15NANNANT01.25 OP13
1891rkj-m2_B_G14_U15NANNANT00.68 OP13
1901rkj-m3_B_G14_U15NANNANT02.03 OP21
1911rkj-m4_B_G14_U15NANNANT01.72 OP24
1921rkj-m5_B_G14_U15NANNANT01.49 OP13
1931rkj-m6_B_G14_U15NANNANT00.96 OP13
1941rkj-m7_B_G14_U15NANNANT00.72 OP13
1951rkj-m8_B_G14_U15NANNANT01.06 OP13
1961rkj-m9_B_G14_U15NANNANT00.92 OP13
1971rkj-m10_B_U15_G16NANNANT00.90 OP11
1981rkj-m11_B_U15_G16NANNANT01.32 OP19
1991rkj-m12_B_U15_G16NANNANT01.08 OP27
2001rkj-m13_B_U15_G16NANNANT01.35 OP31
2011rkj-m14_B_U15_G16NANNANT01.45 OP11
2021rkj-m1_B_U15_G16NANNANT00.79 OP13
2031rkj-m2_B_U15_G16NANNANT01.10 OP11
2041rkj-m3_B_U15_G16NANNANT00.65 OP11
2051rkj-m4_B_U15_G16NANNANT02.38 AB02
2061rkj-m5_B_U15_G16NANNANT01.03 OP27
2071rkj-m6_B_U15_G16NANNANT01.07 OP11
2081rkj-m7_B_U15_G16NANNANT01.12 OP11
2091rkj-m8_B_U15_G16OPNOP13320.41 OP13
2101rkj-m9_B_U15_G16NANNANT00.91 OP11
2111rkj-m10_B_G16_C17AAAAA04510.41 AA04
2121rkj-m11_B_G16_C17AAAAA0070.50 AA00
2131rkj-m12_B_G16_C17AAAAA0070.52 AA00
2141rkj-m13_B_G16_C17AAAAA0090.49 AA00
2151rkj-m14_B_G16_C17AAAAA04420.45 AA04
2161rkj-m1_B_G16_C17AAAAA04420.44 AA04
2171rkj-m2_B_G16_C17AAAAA04470.44 AA04
2181rkj-m3_B_G16_C17AAAAA04410.46 AA04
2191rkj-m4_B_G16_C17AAAAA00160.45 AA00
2201rkj-m5_B_G16_C17AAAAA04230.50 AA04
2211rkj-m6_B_G16_C17AAAAA04490.43 AA04
2221rkj-m7_B_G16_C17AAAAA00120.44 AA00
2231rkj-m8_B_G16_C17AAAAA0080.43 AA00
2241rkj-m9_B_G16_C17AAAAA04490.43 AA04
2251rkj-m10_B_C17_A18AAAAA0090.35 AA00
2261rkj-m11_B_C17_A18AAAAA00110.35 AA00
2271rkj-m12_B_C17_A18AAAAA0070.33 AA00
2281rkj-m13_B_C17_A18AAAAA00100.35 AA00
2291rkj-m14_B_C17_A18AAAAA00150.33 AA00
2301rkj-m1_B_C17_A18AAAAA00120.34 AA00
2311rkj-m2_B_C17_A18AAAAA00120.35 AA00
2321rkj-m3_B_C17_A18AAAAA00160.36 AA00
2331rkj-m4_B_C17_A18AAAAA03100.35 AA03
2341rkj-m5_B_C17_A18AAAAA00120.36 AA00
2351rkj-m6_B_C17_A18AAAAA0090.36 AA00
2361rkj-m7_B_C17_A18AAAAA03120.35 AA03
2371rkj-m8_B_C17_A18AAAAA0090.36 AA00
2381rkj-m9_B_C17_A18AAAAA0090.35 AA00
2391rkj-m10_B_A18_U19AAAAA00130.35 AA00
2401rkj-m11_B_A18_U19AAAAA00220.36 AA00
2411rkj-m12_B_A18_U19AAAAA00190.38 AA00
2421rkj-m13_B_A18_U19AAAAA04410.31 AA04
2431rkj-m14_B_A18_U19AAAAA00230.40 AA00
2441rkj-m1_B_A18_U19AAAAA00230.39 AA00
2451rkj-m2_B_A18_U19AAAAA00210.38 AA00
2461rkj-m3_B_A18_U19AAAAA00300.38 AA00
2471rkj-m4_B_A18_U19AAAAA00180.38 AA00
2481rkj-m5_B_A18_U19AAAAA00160.35 AA00
2491rkj-m6_B_A18_U19AAAAA0090.38 AA00
2501rkj-m7_B_A18_U19AAAAA00230.39 AA00
2511rkj-m8_B_A18_U19AAAAA00110.38 AA00
2521rkj-m9_B_A18_U19AAAAA04410.33 AA04
2531rkj-m10_B_U19_C20AAAAA04640.36 AA04
2541rkj-m11_B_U19_C20AAAAA04630.35 AA04
2551rkj-m12_B_U19_C20AAAAA04630.35 AA04
2561rkj-m13_B_U19_C20AAAAA04640.34 AA04
2571rkj-m14_B_U19_C20AAAAA04610.36 AA04
2581rkj-m1_B_U19_C20AAAAA04620.36 AA04
2591rkj-m2_B_U19_C20AAAAA04620.37 AA04
2601rkj-m3_B_U19_C20AAAAA04620.35 AA04
2611rkj-m4_B_U19_C20AAAAA04630.34 AA04
2621rkj-m5_B_U19_C20AAAAA04640.35 AA04
2631rkj-m6_B_U19_C20AAAAA04630.36 AA04
2641rkj-m7_B_U19_C20AAAAA04630.35 AA04
2651rkj-m8_B_U19_C20AAAAA04640.36 AA04
2661rkj-m9_B_U19_C20AAAAA04630.36 AA04
2671rkj-m10_B_C20_C21AAAAA0080.50 AA00
2681rkj-m11_B_C20_C21AAAAA0070.51 AA00
2691rkj-m12_B_C20_C21AAAAA0090.47 AA00
2701rkj-m13_B_C20_C21AAAAA00100.47 AA00
2711rkj-m14_B_C20_C21AAAAA0090.44 AA00
2721rkj-m1_B_C20_C21AAAAA00230.47 AA00
2731rkj-m2_B_C20_C21AAAAA00160.48 AA00
2741rkj-m3_B_C20_C21AAAAA0090.49 AA00
2751rkj-m4_B_C20_C21AAAAA0090.48 AA00
2761rkj-m5_B_C20_C21AAAAA0090.48 AA00
2771rkj-m6_B_C20_C21AAAAA04490.49 AA04
2781rkj-m7_B_C20_C21AAAAA00100.49 AA00
2791rkj-m8_B_C20_C21AAAAA00150.48 AA00
2801rkj-m9_B_C20_C21AAAAA0080.51 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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