Software Name Version Classification NB SCALEPACKdata scalingShow PHASER2.1.4phasingShow PHENIX1.7.3_928refinementShow PDB_EXTRACT3.11 data extractionShow Blu-Icedata collection DENZOdata reduction
Refinement Method to determine structure : MOLECULAR REPLACEMENT / Resolution : 1.971→19.967 Å / Occupancy max : 1 / Occupancy min : 0.54 / SU ML : 0.21 / σ(F) : 0 / Phase error : 23.83 / Stereochemistry target values : MLRfactor Num. reflection % reflection Selection details Rfree 0.2224 1961 5.09 % random Rwork 0.1825 - - - all 0.1845 38503 - - obs 0.1845 38503 81.87 % -
Solvent computation Shrinkage radii : 0.6 Å / VDW probe radii : 0.9 Å / Solvent model : FLAT BULK SOLVENT MODEL / Bsol : 39.618 Å2 / ksol : 0.365 e/Å3 Displacement parameters Biso max : 154.57 Å2 / Biso mean : 29.2734 Å2 / Biso min : 4.6 Å2 Baniso -1 Baniso -2 Baniso -3 1- 4.5154 Å2 0 Å2 0.7418 Å2 2- - 14.0552 Å2 -0 Å2 3- - - 5.8946 Å2
Refinement step Cycle : LAST / Resolution : 1.971→19.967 ÅProtein Nucleic acid Ligand Solvent Total Num. atoms 5014 0 6 233 5253
Refine LS restraints Refine-ID Type Dev ideal Number X-RAY DIFFRACTION f_bond_d0.008 5130 X-RAY DIFFRACTION f_angle_d1.102 6940 X-RAY DIFFRACTION f_chiral_restr0.079 752 X-RAY DIFFRACTION f_plane_restr0.005 910 X-RAY DIFFRACTION f_dihedral_angle_d14.606 1898
Refine LS restraints NCS Ens-ID Dom-ID Auth asym-ID Number Refine-ID Type Rms dev position (Å)1 1 A2328 X-RAY DIFFRACTION POSITIONAL0.026 1 2 B2328 X-RAY DIFFRACTION POSITIONAL0.026
LS refinement shell Refine-ID : X-RAY DIFFRACTION / Total num. of bins used : 14
Resolution (Å)Rfactor Rfree Num. reflection Rfree Rfactor Rwork Num. reflection Rwork Num. reflection all % reflection obs (%)1.9708-2.02 0.2382 63 0.1775 1021 1084 33 2.02-2.0746 0.2267 63 0.1932 1324 1387 41 2.0746-2.1355 0.251 84 0.199 1746 1830 54 2.1355-2.2044 0.2435 101 0.2032 2027 2128 64 2.2044-2.2831 0.2604 115 0.2014 2373 2488 75 2.2831-2.3743 0.3142 156 0.1986 2736 2892 85 2.3743-2.4822 0.2538 167 0.1977 3017 3184 96 2.4822-2.6128 0.2443 176 0.1912 3188 3364 100 2.6128-2.7761 0.2194 181 0.1806 3144 3325 100 2.7761-2.9898 0.2192 164 0.19 3233 3397 100 2.9898-3.2895 0.2333 175 0.1841 3173 3348 100 3.2895-3.7627 0.2027 177 0.1727 3178 3355 100 3.7627-4.7302 0.1835 179 0.1514 3185 3364 99 4.7302-19.9683 0.2225 160 0.1976 3197 3357 99
Refinement TLS params. Method : refined / Refine-ID : X-RAY DIFFRACTION
Show large table (25 x 40) 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 0.0211 -0.1083 0.0179 0.5757 -0.0735 0.0456 -0.0035 -0.0814 -0.0574 0.1284 0.0035 -0.1341 0.0601 0.1127 -0.1146 0.0514 0.0326 -0.0475 0.3023 0.11 0.0901 -1.1684 25.2149 41.6883 2 0.0582 0.0162 0.0095 0.0411 -0.0171 0.0284 -0.0107 -0.007 -0.0062 -0.0537 -0.0274 0.0265 -0.0224 -0.0089 -0.0346 0.0963 0.0929 -0.0115 0.0866 0.1102 0.165 -10.9486 23.9379 18.7401 3 0.0357 0.08 -0.0983 0.195 -0.2186 0.2717 -0.0678 0.0383 0.0261 -0.0362 -0.0237 0.0877 0.0406 -0.0573 -0.0004 0.1011 -0.0359 0.0123 0.3685 0.0721 0.3518 -21.7168 21.1538 23.7457 4 0.0624 -0.0327 0.0856 0.018 -0.043 0.1963 -0.0097 -0.0405 -0.0849 -0.0225 -0.0277 -0.0328 0.0734 0.0395 -0.0406 0.0626 -0.0225 0.0031 0.1191 0.1496 0.2352 -12.1511 12.1224 31.7148 5 0.2377 0.1722 -0.0709 0.2336 0.1078 0.2529 0.0269 -0.1356 -0.1718 0.0199 -0.0304 -0.0327 0.1718 0.0558 0.0097 0.0762 0.0255 -0.0018 0.0635 0.1073 0.1264 -7.2762 25.1305 28.1106 6 0.2001 0.0577 0.0679 0.3393 -0.0274 0.1008 -0.0013 0.0005 -0.084 0.02 -0.0037 0.0741 -0.0011 -0.0501 0.0336 0.0598 0.0306 0.0377 0.2237 0.0753 0.1766 -15.7001 22.8662 36.249 7 0.3283 0.0549 0.1553 1.5207 -0.4648 0.2315 0.0018 0.1032 -0.0044 -0.1837 0.004 -0.1026 0.0627 0.0107 0.2511 0.0499 0.0231 0.0245 0.1079 0.0641 0.1093 -4.5418 30.6826 23.6594 8 0.0059 -0.002 -0.0024 0.007 -0.0035 0.0038 -0.0223 0.0363 -0.0539 -0.0462 0.0008 -0.0029 0.0024 0.0241 -0.0003 0.3518 0.0009 0.0196 0.3355 0.0162 0.2765 -1.5786 46.7732 11.9835 9 0.2967 -0.1213 0.0028 0.2153 -0.0461 0.0467 -0.002 -0.0011 0.2013 -0.1113 -0.0036 -0.0847 -0.2262 0.0626 -0.0329 0.1207 -0.0291 -0.0055 0.0843 -0.0174 0.1507 -0.0529 43.5008 25.2127 10 0.1151 0.1658 -0.1727 0.2422 -0.2528 0.2622 0.0418 0.0477 0.0421 0.0579 0.0439 0.0486 -0.1085 -0.0358 0.054 0.0518 0.0502 0.0096 0.1422 -0.0036 0.035 -3.7371 33.7955 28.4025 11 0.0095 -0.0061 0.0209 0.1286 -0.0679 0.0828 0.0176 0.1329 0.0786 -0.0447 -0.0413 -0.0224 0.0106 0.0574 -0.0099 0.1235 0.0527 -0.0156 0.4249 0.0191 0.1597 9.2255 32.7283 9.7061 12 0.3462 -0.0253 -0.1601 0.129 -0.1207 0.2105 0.0403 -0.1011 0.12 0.0392 -0.0657 -0.029 -0.0474 0.0936 -0.0493 0.0172 -0.0612 0.0043 0.1587 0.029 0.1136 6.8929 37.9611 24.4382 13 1.0105 0.3843 -0.2434 0.4058 -0.303 1.0299 0.0347 0.1164 -0.2514 -0.031 -0.0663 -0.0868 0.1244 0.1768 -0.3318 0.0053 0.031 -0.0469 0.2025 0.0307 0.112 12.7998 25.4805 20.254 14 0.3247 -0.1736 -0.1506 0.4922 -0.0666 0.1234 0.0859 0.1811 -0.1566 -0.136 -0.0519 0.2195 0.0791 -0.0502 -0.567 0.0542 0.0653 -0.0876 0.1961 0.0795 0.2658 9.0988 17.7552 19.8089 15 0.006 -0.0011 0.0171 0.0002 -0.0031 0.0478 -0.0068 0.0114 -0.0446 -0.0128 0.0016 -0.0273 0.0308 0.0372 -0.0109 0.3301 0.1728 0.031 0.2208 -0.0285 0.4763 10.0129 7.4676 17.1886 16 0.0502 -0.0449 -0.0039 0.1173 0.0404 0.0172 -0.0266 0.0005 -0.0077 0.0075 -0.0323 -0.0787 0.0265 0.0811 -0.2074 0.1267 0.1489 -0.0415 0.2596 0.1795 0.3024 16.715 13.1089 28.0127 17 0.7918 -0.1088 0.1132 0.4157 -0.2699 0.1749 0.0913 0.0179 -0.3147 -0.2568 -0.0321 0.0111 0.2298 0.0272 -0.2711 0.1165 0.0155 -0.0051 0.0528 0.0544 0.2309 -9.0014 15.0647 15.1274 18 0.1115 -0.0471 0.0574 0.1216 -0.0636 0.0602 0.0705 0.0004 -0.1021 -0.0893 -0.0589 -0.026 0.206 0.0607 -0.1129 0.1883 0.0483 0.0167 0.0588 0.0885 0.4469 -1.1299 6.0425 22.221 19 0.0084 -0.0276 -0.0106 0.0901 0.0349 0.0134 -0.0026 -0.0147 -0.0006 0.0278 0.028 -0.0298 0.0277 0.0149 0.0006 0.3408 0.2205 -0.048 0.4583 0.1217 0.6067 12.8165 2.3206 32.8234 20 0.1908 -0.0541 0.2159 0.0184 -0.0799 0.3537 0.0462 -0.0479 -0.0971 0.004 -0.0048 -0.0018 0.1022 0.0389 0.0059 0.083 0.0578 -0.0311 0.2829 0.2198 0.1944 8.6144 17.2443 36.1477 21 0.6659 0.2565 0.2554 0.2235 0.2124 0.2028 0.0118 0.1059 0.0875 -0.0655 -0.0215 0.0468 -0.0642 -0.1017 -0.2825 0.1808 0.169 0.017 0.4928 0.063 0.1406 -37.8069 43.4675 0.7581 22 0.0371 -0.0326 -0.0152 0.0849 0.0013 0.0543 0.028 0.0084 -0.0073 -0.0086 -0.0074 -0.0345 -0.0718 -0.0648 -0.0492 0.1466 0.1271 0.0397 0.0717 0.0818 0.1298 -16.0719 44.7823 12.9984 23 0.0692 -0.0193 0.0717 0.0556 -0.0359 0.0796 0.0461 -0.0593 0.0171 0.0496 0.0167 -0.0168 0.0204 0.0441 0.0041 0.3856 0.0822 0.033 0.4028 -0.0518 0.1214 -22.2327 47.5795 23.1498 24 0.0606 -0.013 0.0502 0.0658 -0.0383 0.055 0.0256 0.0161 0.072 -0.0704 -0.0503 0.0211 -0.0632 -0.0495 -0.1238 0.3705 0.2296 0.0825 0.2704 -0.0072 0.2293 -29.1111 56.5834 12.7522 25 0.3595 0.1274 0.0369 0.2662 0.2501 0.2582 -0.0134 0.0891 0.1651 -0.0319 -0.0194 0.0274 -0.1945 -0.1537 0.0591 0.0958 0.1074 0.0263 0.1164 0.0815 0.087 -24.9865 43.5775 8.3214 26 0.0783 -0.0081 0.1353 0.295 -0.0878 0.2523 0.0357 -0.0657 0.0355 0.0682 -0.004 0.0522 -0.0919 -0.0017 -0.059 0.1597 0.0824 0.0544 0.334 -0.0018 0.1133 -33.9954 45.8361 15.7961 27 0.0315 -0.1345 0.1037 1.4721 -0.2318 0.3876 -0.002 0.0077 0.0132 -0.0419 -0.0358 -0.1596 0.0071 0.0689 0.0905 0.1341 0.0562 0.0066 0.162 0.0578 0.0507 -20.2623 38.0289 6.1022 28 0.0035 -0.0025 0.0029 0.0018 -0.0022 0.0026 -0.0334 0.0178 0.0088 0.0251 -0.0172 -0.0305 -0.0425 0.0317 -0.0001 0.3335 0.0788 -0.0462 0.4143 -0.0539 0.5036 -8.3122 21.9399 4.4629 29 0.3837 0.4363 0.0958 0.5117 0.119 0.0311 -0.0547 0.0583 -0.2286 -0.0505 -0.0154 -0.1548 0.3091 0.0157 0.0288 0.1464 0.0032 0.0489 0.1175 0.0023 0.0976 -21.2989 25.2005 1.4859 30 0.1548 -0.0091 -0.1313 0.0526 0.0201 0.2838 -0.0531 0.0104 -0.0164 0.0087 -0.01 -0.0139 0.0624 0.0224 -0.1569 0.0745 0.0192 0.0045 0.2005 0.0473 0.035 -24.8793 34.9084 4.7789 31 0.0564 0.0284 -0.0501 0.1054 -0.0121 0.0464 -0.0385 0.0248 0.0764 0.0095 -0.0102 -0.0827 -0.0117 0.0888 -0.0087 0.1309 0.0208 -0.0262 0.3797 0.1192 0.2302 -4.8682 35.97 -6.0482 32 0.0397 -0.0104 -0.046 0.0897 -0.0353 0.1031 0.0075 0.0399 -0.0144 -0.0329 -0.0435 0.0141 0.1102 -0.1266 -0.1239 0.0998 0.0403 0.0129 0.1827 -0.0296 0.005 -19.7663 30.7262 -5.3401 33 1.1167 -0.1222 0.0575 0.1742 0.255 0.9161 0.018 0.153 0.1707 -0.0513 -0.0468 -0.0153 -0.289 0.0804 0.324 0.1769 0.0558 -0.0068 0.1544 0.0648 0.0007 -14.9704 43.2023 -10.7687 34 0.151 0.0426 -0.1517 0.3087 -0.1001 0.1655 -0.0444 -0.0502 0.049 0.1926 -0.0536 -0.0892 -0.1466 0.1454 0.4753 0.3062 0.1068 -0.0251 0.2388 0.0934 0.0884 -14.9435 50.904 -7.0763 35 0.0762 -0.0747 0.0607 0.0926 -0.0369 0.0745 -0.0299 0.0447 0.0628 -0.0295 -0.0191 -0.0228 -0.027 0.0476 -0.0021 0.5597 0.0051 0.0819 0.1753 0.0964 0.31 -12.244 61.2205 -7.7019 36 0.0518 0.0707 -0.0099 0.1066 -0.0464 0.1056 -0.0184 0.0701 0.0716 -0.0394 -0.0204 -0.0099 -0.076 0.0236 0.0904 0.4231 0.1969 0.0057 0.3675 0.1586 0.1903 -22.2636 55.5602 -15.5349 37 0.5744 -0.4698 -0.3717 0.502 -0.0238 1.1697 -0.041 -0.0005 0.3447 0.0261 -0.0363 -0.3596 -0.4047 0.2425 0.1332 0.2876 0.0181 0.0229 0.1239 0.0465 0.238 -12.228 53.6636 11.4197 38 0.191 -0.199 0.0808 0.207 -0.0739 0.1052 -0.0442 0.0378 0.1802 -0.0651 -0.0347 -0.023 -0.106 -0.0095 -0.0768 0.4535 0.1251 0.08 0.1058 0.0499 0.3102 -18.4729 62.6668 2.8175 39 0.0624 0.017 -0.0093 0.0181 0.005 0.0057 -0.0243 0.0231 0.0584 -0.0017 -0.0015 0.0271 -0.0404 -0.0029 -0.0054 0.7002 0.3152 0.0723 0.5531 0.2099 0.5483 -27.4831 66.3499 -12.2071 40 0.2049 -0.0715 0.1249 0.0249 -0.0458 0.1129 0.0217 0.055 0.0603 -0.0197 -0.0048 0.0123 -0.083 -0.0587 0.0713 0.3104 0.256 0.0279 0.4219 0.1028 0.155 -31.2394 51.4264 -8.3661
Refinement TLS group Show large table (6 x 40) Hide large table ID Refine-ID Refine TLS-ID Selection details Auth asym-ID Auth seq-ID 1 X-RAY DIFFRACTION 1 (chain A and resid 3:19)A3 - 19 2 X-RAY DIFFRACTION 2 (chain A and resid 20:41)A20 - 41 3 X-RAY DIFFRACTION 3 (chain A and resid 42:47)A42 - 47 4 X-RAY DIFFRACTION 4 (chain A and resid 48:61)A48 - 61 5 X-RAY DIFFRACTION 5 (chain A and resid 62:81)A62 - 81 6 X-RAY DIFFRACTION 6 (chain A and resid 82:87)A82 - 87 7 X-RAY DIFFRACTION 7 (chain A and resid 88:109)A88 - 109 8 X-RAY DIFFRACTION 8 (chain A and resid 110:114)A110 - 114 9 X-RAY DIFFRACTION 9 (chain A and resid 115:131)A115 - 131 10 X-RAY DIFFRACTION 10 (chain A and resid 132:149)A132 - 149 11 X-RAY DIFFRACTION 11 (chain A and resid 150:155)A150 - 155 12 X-RAY DIFFRACTION 12 (chain A and resid 156:175)A156 - 175 13 X-RAY DIFFRACTION 13 (chain A and resid 176:217)A176 - 217 14 X-RAY DIFFRACTION 14 (chain A and resid 218:240)A218 - 240 15 X-RAY DIFFRACTION 15 (chain A and