Software Name Version Classification NB MLPHARECCP4_5.99phasingShow HKL-2000data collection HKL-2000data reduction HKL-2000data scaling REFMAC5.2.0019refinement
Refinement Method to determine structure : MIRAS / Resolution : 1.7→55.64 Å / Cor.coef. Fo :Fc : 0.963 / Cor.coef. Fo :Fc free : 0.945 / WRfactor Rfree : 0.209 / WRfactor Rwork : 0.168 / SU B : 4.56 / SU ML : 0.077 / TLS residual ADP flag : LIKELY RESIDUAL / Isotropic thermal model : TLS / Cross valid method : THROUGHOUT / σ(F) : 0 / ESU R : 0.112 / ESU R Free : 0.113 Stereochemistry target values : MAXIMUM LIKELIHOOD WITH PHASESDetails : HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONSRfactor Num. reflection % reflection Selection details Rfree 0.21 1229 5 % RANDOM Rwork 0.168 - - - all 0.17 24792 - - obs 0.17 24792 88.8 % -
Solvent computation Ion probe radii : 0.8 Å / Shrinkage radii : 0.8 Å / VDW probe radii : 1.4 Å / Solvent model : BABINET MODEL WITH MASKDisplacement parameters Biso mean : 21.165 Å2 Baniso -1 Baniso -2 Baniso -3 1- -0.46 Å2 0 Å2 -0.57 Å2 2- - -1.77 Å2 0 Å2 3- - - 2.22 Å2
Refine analyze Free Obs Luzzati coordinate error 0.113 Å 0.112 Å
Refinement step Cycle : LAST / Resolution : 1.7→55.64 ÅProtein Nucleic acid Ligand Solvent Total Num. atoms 1796 0 0 211 2007
Refine LS restraints Show large table (5 x 17) Hide large table Refine-ID Type Dev ideal Dev ideal target Number X-RAY DIFFRACTION r_bond_refined_d0.015 0.021 1942 X-RAY DIFFRACTION r_angle_refined_deg1.678 1.965 2665 X-RAY DIFFRACTION r_dihedral_angle_1_deg6.615 5 266 X-RAY DIFFRACTION r_dihedral_angle_2_deg36.093 22.609 92 X-RAY DIFFRACTION r_dihedral_angle_3_deg13.919 15 336 X-RAY DIFFRACTION r_dihedral_angle_4_deg17.458 15 23 X-RAY DIFFRACTION r_chiral_restr0.121 0.2 299 X-RAY DIFFRACTION r_gen_planes_refined0.007 0.02 1515 X-RAY DIFFRACTION r_nbd_refined0.215 0.2 786 X-RAY DIFFRACTION r_nbtor_refined0.306 0.2 1307 X-RAY DIFFRACTION r_xyhbond_nbd_refined0.121 0.2 191 X-RAY DIFFRACTION r_symmetry_vdw_refined0.25 0.2 52 X-RAY DIFFRACTION r_symmetry_hbond_refined0.192 0.2 12 X-RAY DIFFRACTION r_mcbond_it1.005 1.5 1247 X-RAY DIFFRACTION r_mcangle_it1.495 2 1971 X-RAY DIFFRACTION r_scbond_it2.142 3 780 X-RAY DIFFRACTION r_scangle_it3.255 4.5 676
LS refinement shell Refine-ID : X-RAY DIFFRACTION / Total num. of bins used : 20
Show large table (7 x 20) Hide large table Resolution (Å)Rfactor Rfree Num. reflection Rfree Rfactor Rwork Num. reflection Rwork Num. reflection all % reflection obs (%)1.699-1.743 0.368 41 0.278 867 2062 44.035 1.743-1.79 0.268 60 0.242 1121 1984 59.526 1.79-1.842 0.305 79 0.216 1357 1965 73.079 1.842-1.899 0.223 70 0.197 1451 1858 81.862 1.899-1.961 0.21 70 0.181 1619 1885 89.602 1.961-2.03 0.248 72 0.167 1630 1758 96.815 2.03-2.106 0.239 88 0.171 1587 1714 97.725 2.106-2.192 0.2 75 0.163 1610 1692 99.586 2.192-2.289 0.199 85 0.171 1460 1547 99.871 2.289-2.401 0.22 76 0.171 1433 1511 99.868 2.401-2.531 0.191 76 0.181 1409 1485 100 2.531-2.684 0.217 69 0.176 1273 1342 100 2.684-2.869 0.225 60 0.165 1194 1254 100 2.869-3.098 0.207 65 0.158 1145 1210 100 3.098-3.392 0.216 55 0.15 1050 1105 100 3.392-3.791 0.172 50 0.145 944 994 100 3.791-4.374 0.185 50 0.142 848 898 100 4.374-5.349 0.173 40 0.149 699 739 100 5.349-7.53 0.261 33 0.194 547 580 100 7.53-55.641 0.197 15 0.209 319 335 99.701
Refinement TLS params. Method : refined / Refine-ID : X-RAY DIFFRACTION
Show large table (25 x 20) Hide large table ID L11 (°2 )L12 (°2 )L13 (°2 )L22 (°2 )L23 (°2 )L33 (°2 )S11 (Å °)S12 (Å °)S13 (Å °)S21 (Å °)S22 (Å °)S23 (Å °)S31 (Å °)S32 (Å °)S33 (Å °)T11 (Å2 )T12 (Å2 )T13 (Å2 )T22 (Å2 )T23 (Å2 )T33 (Å2 )Origin x (Å)Origin y (Å)Origin z (Å)1 20.3582 15.9816 0.7241 39.1015 17.01 10.2054 -1.2201 2.1265 0.5145 -1.8364 0.595 1.0638 -0.8353 0.5753 0.6251 0.1277 -0.0915 -0.099 0.223 0.0027 0.0104 -30.104 24.933 16.31 2 2.1616 2.6611 0.8674 3.5377 1.5424 1.2088 -0.0344 -0.06 0.2393 0.0487 -0.1362 0.2364 -0.0863 -0.1586 0.1706 0.026 -0.0014 0.0003 0.0517 -0.0281 0.0649 -19.951 35.657 27.865 3 20.9144 11.0983 3.6426 9.5872 3.3882 3.8569 0.1535 -0.5382 -0.5123 -0.1003 -0.2679 -0.0789 -0.1286 -0.5956 0.1145 0.0034 -0.0091 0.0076 0.1643 0.016 -0.0398 -26.697 19.067 27.075 4 32.1616 0.8358 -18.6614 1.7174 3.303 19.2903 0.2535 0.7201 1.9511 -0.6954 0.9579 0.5917 -0.8377 0.2521 -1.2114 0.1082 -0.1197 0.0669 0.1338 0.0279 0.1141 -8.28 25.449 20.492 5 7.0038 -1.9773 -8.683 1.0426 0.8746 33.6311 -0.1833 -0.213 -0.5838 0.0168 -0.1348 0.2033 0.7135 0.5317 0.3182 -0.0068 0.0086 0.0227 0.0059 0.0053 0.0574 -12.067 21.247 25.831 6 47.7324 9.2507 1.0865 5.7536 -3.8749 16.7427 -0.3386 -0.7951 -0.7204 -0.0084 0.8761 0.3479 0.11 -1.6206 -0.5375 -0.032 -0.0255 0.0201 0.2661 0.1417 0.0116 -29.117 16.679 33.193 7 1.1873 3.0174 -2.2238 8.5875 -5.8298 4.1998 0.0417 -0.089 -0.5219 0.564 -0.5299 -1.0206 -0.3073 0.1156 0.4882 0.0445 -0.0089 -0.0482 0.047 0.0487 0.1298 -13.871 21.883 36.702 8 9.9526 7.1336 0.2836 5.8129 -0.1624 3.3647 0.2184 -0.1382 0.4657 0.443 -0.1877 0.2023 -0.2299 -0.2013 -0.0306 0.0524 -0.0037 0.0235 0.0377 -0.0101 0.0276 -20.321 28.822 34.861 9 3.2664 3.7217 1.9091 5.9186 2.8131 1.7992 0.0777 0.105 -0.2524 0.0144 -0.0632 -0.3291 -0.0032 -0.0907 -0.0145 0.0171 -0.0294 0.0147 0.0654 -0.0143 0.0307 -16.747 27.511 25.042 10 12.4645 9.7501 6.0439 7.8628 4.1499 4.3462 0.036 0.1952 -0.1084 0.0372 0.2281 -0.2945 0.116 0.1792 -0.2641 0.0266 0.0045 0.0085 0.0476 -0.0174 0.0966 -7.437 43.713 28.993 11 10.6182 5.9845 -1.1535 3.3734 -0.6786 1.7558 0.1618 -0.3887 -0.1731 0.0943 -0.2538 -0.0318 -0.0493 0.1972 0.092 0.0292 0.0208 0.036 0.0692 -0.0019 0.012 16.182 62.538 30.857 12 5.8272 9.2107 -4.9564 14.8025 -9.259 12.5389 0.2195 -0.4088 -0.1898 0.0646 -0.3876 -0.2207 0.5621 1.3304 0.1681 -0.0117 -0.0015 0.0472 0.221 0.0097 -0.0214 23.338 67.282 19.491 13 3.5384 2.4799 -0.3538 1.9364 -0.5847 0.6071 -0.026 0.023 -0.2543 -0.1012 0.0004 -0.0809 0.0022 0.021 0.0256 0.0389 0.0045 0.0223 0.0461 -0.0125 0.0966 5.239 53.697 27.263 14 7.408 -7.4131 -0.6493 8.6289 -1.8095 5.0522 0.3098 0.5748 0.3472 -0.0636 -0.1087 0.1979 0.0606 -0.3548 -0.2011 0.0121 0.0149 -0.0301 0.0487 0.0485 0.085 4.007 67.465 21.116 15 24.1353 16.3241 0.9098 14.1706 1.1513 12.9513 -1.192 1.8458 -1.4118 -2.2767 1.5166 -0.47 0.2905 0.6527 -0.3246 0.2942 -0.0664 0.0416 0.1219 -0.1187 -0.0688 14.035 59.551 12.991 16 8.5736 10.6344 -4.0542 13.2441 -5.7798 12.4614 -0.5903 0.1838 -0.6435 -1.1112 -0.1259 -0.3245 1.3021 -0.1779 0.7162 0.1833 -0.0125 0.0609 -0.0282 -0.0607 0.0152 11.566 53.502 19.82 17 3.3334 4.1396 -1.7913 6.353 -2.6175 1.09 -0.028 0.0714 -0.3732 -0.0741 -0.0814 -0.2323 -0.0885 -0.0012 0.1094 0.0516 -0.0014 0.0182 0.0465 -0.0042 0.0782 7.116 47.332 27.108 18 2.9508 1.2241 -0.6033 2.1421 -0.6012 0.5014 0.0032 0.1016 0.2043 -0.079 -0.0029 0.1155 -0.1023 -0.0856 -0.0003 0.0776 0.0054 0.0065 0.0397 0.0151 0.0222 10.992 69.512 24.595 19 11.5154 2.5175 2.1426 12.9538 -3.6551 1.7695 0.1089 0.0298 0.2205 0.1778 -0.0943 -0.2168 0.1842 -0.0257 -0.0146 -0.014 -0.0131 0.0137 0.0509 -0.0019 0.1023 -11.154 51.567 26.569 20 12.3194 7.9718 0.5199 5.4374 0.6656 0.5395 0.0893 -0.2289 0.2717 0.0201 -0.1053 0.3072 -0.1248 0.026 0.0159 0.0364 0.0057 0.0258 0.0447 0.019 0.0317 10.98 66.615 31.34
Refinement TLS group Refine-ID : X-RAY DIFFRACTION / Selection : ALL / Auth asym-ID : A / Label asym-ID : A
Show large table (4 x 20) Hide large table ID Refine TLS-ID Auth seq-ID Label seq-ID 1 1 1 - 4 1 - 4 2 2 5 - 27 5 - 27 3 3 28 - 35 28 - 35 4 4 36 - 42 36 - 42 5 5 43 - 48 43 - 48 6 6 49 - 56 49 - 56 7 7 57 - 70 57 - 70 8 8 71 - 82 71 - 82 9 9 83 - 108 83 - 108 10 10 109 - 118 109 - 118 11 11 119 - 130 119 - 130 12 12 131 - 136 131 - 136 13 13 137 - 154 137 - 154 14 14 155 - 163 155 - 163 15 15 164 - 171 164 - 171 16 16 172 - 176 172 - 176 17 17 177 - 192 177 - 192 18 18 193 - 209 193 - 209 19 19 210 - 218 210 - 218 20 20 219 - 231 219 - 231