Software Name Version Classification REFMAC5.8.0258refinement PDB_EXTRACT3.25 data extraction HKL-3000data reduction HKL-3000data scaling HKL-3000phasing
Refinement Method to determine structure : SAD / Resolution : 1.75→29.7 Å / Cor.coef. Fo :Fc : 0.972 / Cor.coef. Fo :Fc free : 0.964 / SU B : 4.571 / SU ML : 0.073 / Cross valid method : THROUGHOUT / σ(F) : 0 / ESU R : 0.101 / ESU R Free : 0.095 / Stereochemistry target values : MAXIMUM LIKELIHOODDetails : HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : WITH TLS ADDEDRfactor Num. reflection % reflection Selection details Rfree 0.1832 6304 5 % RANDOM Rwork 0.158 - - - obs 0.1593 120563 99.71 % -
Solvent computation Ion probe radii : 0.8 Å / Shrinkage radii : 0.8 Å / VDW probe radii : 1.2 Å / Solvent model : MASKDisplacement parameters Biso max : 108.5 Å2 / Biso mean : 28.471 Å2 / Biso min : 15.05 Å2 Baniso -1 Baniso -2 Baniso -3 1- 1.61 Å2 0 Å2 1.71 Å2 2- - -0.71 Å2 0 Å2 3- - - -1.32 Å2
Refinement step Cycle : final / Resolution : 1.75→29.7 ÅProtein Nucleic acid Ligand Solvent Total Num. atoms 8583 0 121 1309 10013 Biso mean - - 46.49 39.11 - Num. residues - - - - 1078
Refine LS restraints Refine-ID Type Dev ideal Dev ideal target Number X-RAY DIFFRACTION r_bond_refined_d0.007 0.013 9100 X-RAY DIFFRACTION r_bond_other_d0.001 0.017 8341 X-RAY DIFFRACTION r_angle_refined_deg1.346 1.649 12366 X-RAY DIFFRACTION r_angle_other_deg0.371 1.575 19395 X-RAY DIFFRACTION r_dihedral_angle_1_deg3.481 5 1122 X-RAY DIFFRACTION r_dihedral_angle_2_deg26.728 22.43 461 X-RAY DIFFRACTION r_dihedral_angle_3_deg9.039 15 1466 X-RAY DIFFRACTION r_dihedral_angle_4_deg7.332 15 48 X-RAY DIFFRACTION r_chiral_restr0.063 0.2 1177 X-RAY DIFFRACTION r_gen_planes_refined0.052 0.02 10163 X-RAY DIFFRACTION r_gen_planes_other0.047 0.02 1957
LS refinement shell Resolution : 1.75→1.795 Å / Rfactor Rfree error : 0 / Total num. of bins used : 20 Rfactor Num. reflection % reflection Rfree 0.277 499 - Rwork 0.251 8747 - all - 9246 - obs - - 99.38 %
Refinement TLS params. Method : refined / Refine-ID : X-RAY DIFFRACTION
Show large table (25 x 36) 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 8.6423 2.2177 -1.3246 2.7321 -0.4486 4.1248 0.1608 -0.1673 0.2511 0.0913 -0.0162 0.161 -0.2959 0.15 -0.1447 0.1065 0.0096 0.0332 0.0181 0.0077 0.0509 53.1609 46.8192 20.9976 2 2.9411 0.8027 -1.0528 2.6457 -0.9666 2.0899 0.1541 0.0677 0.235 0.1202 0.0695 0.2878 -0.3047 -0.2094 -0.2236 0.0532 0.0426 0.0176 0.0627 0.0306 0.1026 44.2215 34.9755 27.608 3 1.4884 -0.0173 0.1862 1.4729 -0.3099 1.0078 0.0833 -0.1779 0.1543 0.008 0.025 0.0149 -0.1937 0.0593 -0.1083 0.0907 -0.01 0.0033 0.1254 0.0132 0.097 55.4715 30.4383 35.1105 4 8.9107 -0.0358 0.5959 0.8691 0.521 0.3552 -0.0665 0.0598 -0.329 0.0212 0.0678 0.0357 0.0109 0.0478 -0.0013 0.0949 0.0238 0.0256 0.105 0.0262 0.0445 55.4699 16.7076 32.7153 5 1.1061 0.0298 -0.8438 1.1711 -0.0115 1.4373 0.0224 0.1116 0.0156 -0.1212 0.0006 0.0469 -0.016 -0.0889 -0.023 0.0593 -0.0003 -0.0113 0.0526 0.0113 0.0634 56.0025 28.658 18.1301 6 2.6793 0.6656 -1.438 5.2244 -0.0464 3.0045 -0.0713 0.6059 0.0225 -0.5808 0.1964 0.349 0.0961 -0.4518 -0.1251 0.1296 -0.0104 -0.079 0.1865 0.0224 0.0576 47.9939 32.2482 7.8986 7 7.4396 3.001 0.6944 12.0975 -0.9698 3.353 -0.1331 0.0635 -0.3319 -0.171 0.2998 0.78 0.043 -0.3127 -0.1667 0.0111 0.0042 -0.0222 0.1134 0.0389 0.1766 16.8322 10.7174 73.2401 8 1.3117 -0.3086 -0.5195 1.483 -0.5755 2.0209 -0.0104 0.1142 0.0254 -0.1243 0.0546 0.0882 0.0559 -0.1251 -0.0443 0.0291 -0.0102 -0.0444 0.0695 0.0043 0.0803 31.6487 17.3098 61.6063 9 7.5403 -0.6978 -2.5765 1.2122 -0.508 1.3677 -0.1152 -0.3424 -0.1153 -0.1322 0.0323 -0.0619 0.1453 0.1117 0.0829 0.1109 -0.0262 -0.0223 0.0431 -0.0028 0.0848 35.757 0.6927 61.117 10 3.4552 0.1152 0.3723 7.6053 -0.9894 0.1765 -0.0425 -0.016 -0.2819 0.0023 0.0472 -0.1002 0.0015 0.0049 -0.0047 0.0789 0.0105 0.0344 0.0815 0.0112 0.0867 47.5446 7.5289 58.3763 11 1.3115 0.2575 -0.5278 1.4983 -0.4485 1.6633 -0.0274 -0.1018 -0.0697 0.0245 0.0009 0.005 -0.0139 0.1023 0.0265 0.0214 0.0032 -0.0393 0.0832 -0.0086 0.0902 36.3752 9.9054 75.8727 12 5.6396 -0.1779 0.7858 2.94 -0.2618 4.8659 0.1735 -0.2991 0.0975 0.3051 -0.0527 -0.0606 -0.3684 0.141 -0.1208 0.085 -0.008 -0.0018 0.0651 -0.041 0.0388 33.8653 18.2788 87.3204 13 7.6636 5.8111 4.3977 11.6459 4.3 10.2694 0.0746 -0.0445 -0.1088 0.1876 -0.0251 -0.4703 0.0679 0.717 -0.0495 0.0236 0.048 -0.0109 0.1957 0.0215 0.0598 87.7339 -2.4189 39.0674 14 1.7833 -0.8559 0.3964 1.5398 0.0695 3.2727 -0.0065 -0.0206 -0.078 -0.0571 0.0209 -0.0522 0.2974 0.3084 -0.0144 0.0647 0.0518 -0.0113 0.0746 0.0174 0.0503 78.7709 -4.156 28.8369 15 1.0511 -0.0743 0.4804 4.3003 1.6581 1.6137 0.0871 0.0421 -0.0691 -0.1503 0.0244 -0.4219 0.0589 0.268 -0.1116 0.0525 0.0434 0.015 0.1038 0.0147 0.0611 79.9657 3.8701 21.975 16 0.5476 -0.5582 -0.1089 1.8352 -0.3577 1.14 -0.0486 -0.0913 -0.0203 0.1292 0.0411 0.0027 0.0392 0.0651 0.0075 0.0315 0.0193 -0.0267 0.0832 0.0095 0.0515 70.7864 6.3255 35.6136 17 2.9749 -0.8188 1.5616 2.3964 0.5083 4.3367 -0.0077 -0.2584 -0.0029 0.3231 0.0272 0.1016 0.267 -0.2341 -0.0195 0.0788 0.013 0.0212 0.0749 0.0436 0.0519 71.1989 -4.4356 46.1975 18 11.218 -3.1162 -3.8577 3.6203 0.3336 4.8111 0.079 -0.1011 -0.4017 0.0427 0.0495 0.2854 0.5369 -0.4487 -0.1286 0.1232 -0.0609 -0.0213 0.1016 0.0592 0.0754 68.2595 -9.228 44.5777 19 1.2923 0.6755 0.2476 3.2216 1.3337 2.0532 0.0478 -0.0047 0.2221 0.0006 0.0073 0.006 -0.2063 0.093 -0.0551 0.0409 -0.0346 -0.0095 0.1154 0.0141 0.1222 69.2415 31.5393 57.8069 20 7.7057 1.1015 -0.6088 0.9709 0.1116 1.7733 0.1308 0.2101 0.3356 0.0993 -0.0045 0.1316 -0.2453 -0.0052 -0.1263 0.0847 -0.0414 0.0024 0.0822 0.0019 0.0925 69.1803 33.6853 52.4281 21 2.0801 0.2961 -0.1832 0.7499 -0.1568 1.126 0.0512 0.0186 0.1527 0.0543 0.0165 -0.0303 -0.1359 0.0566 -0.0676 0.0275 -0.0262 -0.0074 0.081 0.0137 0.0514 61.1543 28.4385 44.0419 22 7.3308 0.4562 -0.0967 0.0384 -0.0116 0.009 -0.0646 0.028 -0.2161 -0.012 0.0374 -0.0226 0.0128 -0.016 0.0273 0.0936 -0.0216 0.0309 0.1283 -0.0165 0.094 58.7818 15.2147 41.4421 23 1.8773 0.0889 -0.8859 0.751 -0.0535 1.3784 0.0411 -0.1278 0.0698 0.0436 -0.0325 0.0272 0.0216 0.0459 -0.0086 0.0175 -0.0259 -0.0224 0.1126 -0.0065 0.0889 59.0319 21.3665 59.3169 24 3.6417 1.8507 -1.2218 4.1628 0.4517 4.6005 0.1146 -0.5692 -0.1893 0.2001 -0.1433 -0.0966 0.2334 0.4416 0.0287 0.0464 -0.0179 -0.0494 0.2168 0.0481 0.0849 67.2565 20.9476 70.1821 25 10.0708 -9.0349 -4.0113 11.2904 4.2265 5.4639 0.1265 -0.0939 0.3004 0.0325 -0.0176 -0.4194 0.0598 0.5613 -0.109 0.0354 -0.0339 -0.0021 0.1462 0.0071 0.0421 92.2244 27.6591 3.8474 26 3.5628 -0.0362 -1.0028 3.5339 0.5723 3.9441 -0.0184 -0.1324 0.0485 0.059 0.0329 -0.127 -0.1362 0.457 -0.0146 0.0406 -0.0394 -0.0079 0.0899 -0.0068 0.0102 82.4564 26.1407 10.818 27 2.4005 -1.1277 -0.0372 8.6223 5.1496 3.2695 -0.0676 -0.0695 0.1093 0.1368 0.1464 -0.158 0.0609 0.1106 -0.0788 0.0709 -0.0341 -0.0064 0.1124 -0.0138 0.0523 88.6097 29.9622 16.1605 28 1.5105 0.1794 -0.2542 2.321 -0.0454 1.8206 -0.0221 -0.0512 -0.0558 -0.0114 -0.0071 -0.1576 0.0541 0.2967 0.0292 0.0408 0.0117 0.0052 0.1004 0.0088 0.0142 79.1971 17.1273 15.8902 29 0.803 -0.3407 -0.9588 0.6297 0.3722 1.8154 0.0122 0.0864 0.0117 -0.0877 -0.0049 -0.0441 0.0406 -0.0377 -0.0073 0.0863 -0.0059 0.0107 0.0679 0.0004 0.0376 77.0059 20.9732 -0.3184 30 3.5349 -1.0196 1.0706 3.2292 -0.7153 5.6399 0.2006 0.0486 0.0663 -0.1205 -0.2088 -0.0385 -0.1655 -0.002 0.0083 0.0614 -0.019 0.0333 0.053 0.0123 0.0728 82.4871 32.0366 -9.0929 31 8.0156 -4.424 1.172 11.3267 -4.9733 5.4597 0.0789 0.0581 -0.1084 0.0662 0.1154 0.3459 0.0164 -0.5104 -0.1943 0.0067 -0.0205 0.0079 0.1398 -0.0389 0.062 25.4838 0.2245 30.0071 32 2.7481 0.8216 0.8597 2.9991 0.139 4.0334 0.1047 -0.1233 -0.3563 0.2324 -0.0652 -0.0106 0.4417 -0.4199 -0.0394 0.0951 -0.0742 0.0024 0.0657 0.0101 0.0995 34.8466 -5.308 38.2964 33 0.5998 0.4622 0.3351 4.1933 1.4679 0.9602 0.0509 -0.0781 -0.0611 0.2939 -0.0764 0.118 0.1939 -0.3033 0.0254 0.1747 -0.0715 0.002 0.1777 0.0156 0.1131 34.8226 1.284 47.6295 34 1.6604 0.4893 -0.0105 1.2728 1.6615 2.4686 0.086 -0.0092 -0.1846 -0.0167 0.0187 -0.1538 -0.0569 -0.0154 -0.1047 0.161 -0.0232 -0.022 0.1155 0.0021 0.1818 44.9077 7.0183 38.4733 35 2.1954 0.8604 0.8308 3.843 -0.1561 3.7707 -0.0805 0.2112 -0.0575 -0.2234 0.0207 -0.0923 -0.1868 -0.0261 0.0598 0.0336 -0.0126 0.0149 0.0455 -0.0247 0.0204 40.5555 6.2984 28.2073 36 5.1518 -0.1872 -0.6747 1.6282 -0.2916 4.2561 0.0617 0.4214 -0.0825 -0.2376 -0.1048 -0.0824 0.2302 -0.071 0.0431 0.0589 -0.0012 0.0256 0.0864 -0.0587 0.0819 42.0315 -1.004 21.1701
Refinement TLS group Show large table (5 x 36) Hide large table ID Refine-ID Refine TLS-ID Auth asym-ID Auth seq-ID 1 X-RAY DIFFRACTION 1 A74 - 81 2 X-RAY DIFFRACTION 2 A82 - 120 3 X-RAY DIFFRACTION 3 A121 - 156 4 X-RAY DIFFRACTION 4 A157 - 162 5 X-RAY DIFFRACTION 5 A163 - 223 6 X-RAY DIFFRACTION 6 A224 - 252 7 X-RAY DIFFRACTION 7 B70 - 81 8 X-RAY DIFFRACTION 8 B82 - 145 9 X-RAY DIFFRACTION 9 B146 - 154 10 X-RAY DIFFRACTION 10 B155 - 163 11 X-RAY DIFFRACTION 11 B164 - 235 12 X-RAY DIFFRACTION 12 B236 - 252 13 X-RAY DIFFRACTION 13 C74 - 84 14 X-RAY DIFFRACTION 14 C85 - 111 15 X-RAY DIFFRACTION 15 C112 - 151 16 X-RAY DIFFRACTION 16 C152 - 223 17 X-RAY DIFFRACTION 17 C224 - 243 18 X-RAY DIFFRACTION 18 C244 - 252 19 X-RAY DIFFRACTION 19 D74 - 99 20 X-RAY DIFFRACTION 20 D100 - 115 21 X-RAY DIFFRACTION 21 D116 - 156 22 X-RAY DIFFRACTION 22 D157 - 162 23 X-RAY DIFFRACTION 23 D163 - 223 24 X-RAY DIFFRACTION 24 D224 - 252 25 X-RAY DIFFRACTION 25 E75 - 89 26 X-RAY DIFFRACTION 26 E90 - 107 27 X-RAY DIFFRACTION 27 E108 - 114 28 X-RAY DIFFRACTION 28 E115 - 159 29 X-RAY DIFFRACTION 29 E160 - 228 30 X-RAY DIFFRACTION 30 E229 - 252 31 X-RAY DIFFRACTION 31 F74 - 84 32 X-RAY DIFFRACTION 32 F85 - 112 33 X-RAY DIFFRACTION 33 F113 - 153 34 X-RAY DIFFRACTION 34 F154 - 200 35 X-RAY DIFFRACTION 35 F201 - 224 36 X-RAY DIFFRACTION 36 F225 - 252