Software Name Version Classification ADSCQuantumdata collection PHASERphasing PHENIX(phenix.refine: 1.7.3_928)refinement HKL-2000data reduction HKL-2000data scaling
Refinement Method to determine structure : MOLECULAR REPLACEMENT / Resolution : 2.2→40.115 Å / SU ML : 0.22 / σ(F) : 0 / Phase error : 24.82 / Stereochemistry target values : MLRfactor Num. reflection % reflection Rfree 0.238 1567 5.17 % Rwork 0.1939 - - obs 0.1962 30327 79.65 % all - 30329 -
Solvent computation Shrinkage radii : 0.6 Å / VDW probe radii : 0.9 Å / Solvent model : FLAT BULK SOLVENT MODEL / Bsol : 50.039 Å2 / ksol : 0.364 e/Å3 Displacement parameters Baniso -1 Baniso -2 Baniso -3 1- 2.56 Å2 0 Å2 1.7236 Å2 2- - 3.5032 Å2 -0 Å2 3- - - -11.6775 Å2
Refinement step Cycle : LAST / Resolution : 2.2→40.115 ÅProtein Nucleic acid Ligand Solvent Total Num. atoms 2533 650 3 405 3591
Refine LS restraints Refine-ID Type Dev ideal Number X-RAY DIFFRACTION f_bond_d0.008 3427 X-RAY DIFFRACTION f_angle_d1.084 4790 X-RAY DIFFRACTION f_dihedral_angle_d20.453 1341 X-RAY DIFFRACTION f_chiral_restr0.072 524 X-RAY DIFFRACTION f_plane_restr0.004 498
LS refinement shell Resolution (Å)Rfactor Rfree Num. reflection Rfree Rfactor Rwork Num. reflection Rwork Refine-ID % reflection obs (%)2.2-2.271 0.2506 85 0.201 1506 X-RAY DIFFRACTION 46 2.271-2.3522 0.2515 112 0.2129 1708 X-RAY DIFFRACTION 53 2.3522-2.4463 0.2935 105 0.2267 1957 X-RAY DIFFRACTION 60 2.4463-2.5577 0.287 118 0.2378 2274 X-RAY DIFFRACTION 69 2.5577-2.6925 0.297 139 0.246 2499 X-RAY DIFFRACTION 77 2.6925-2.8611 0.3402 158 0.2478 2847 X-RAY DIFFRACTION 87 2.8611-3.082 0.2947 163 0.2434 3207 X-RAY DIFFRACTION 97 3.082-3.392 0.2665 177 0.2097 3220 X-RAY DIFFRACTION 98 3.392-3.8824 0.2291 184 0.1726 3220 X-RAY DIFFRACTION 98 3.8824-4.8901 0.1679 168 0.1334 3170 X-RAY DIFFRACTION 97 4.8901-40.1212 0.161 158 0.1688 3152 X-RAY DIFFRACTION 94
Refinement TLS params. Method : refined / Refine-ID : X-RAY DIFFRACTION
Show large table (25 x 37) 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 7.3786 -1.363 1.5663 6.7661 1.6117 5.0618 -0.0883 0.1452 0.1051 0.178 0.0885 -0.6288 -0.091 0.285 -0.0242 0.2329 0.0612 0.0203 0.2745 -0.0119 1.0476 33.8361 -30.6447 0.9608 2 1.314 -0.6028 -0.0787 2.1783 -0.0142 0.8128 -0.1727 -0.1524 -0.4927 0.2544 -0.0632 -0.2022 0.1904 0.0857 0.0695 0.1528 0.1347 -0.1511 0.0283 0.1083 0.8181 21.1489 -33.1823 6.0104 3 0.3728 -1.382 -0.079 8.5217 -0.3234 0.4464 -0.0231 -0.1933 -0.2033 0.3906 0.0073 0.1351 0.1121 0.0202 0.0214 0.2174 0.0495 0.0457 0.2353 -0.0539 -0.0013 4.7153 -14.2304 9.9777 4 1.5309 -0.5561 0.0771 1.299 0.1743 0.4746 -0.0088 0.1525 0.9128 -0.1171 -0.0101 -1.0361 -0.1326 0.0549 -0.0184 0.0898 -0.1632 0.1026 -0.0633 0.07 0.5379 20.3157 0.6273 -2.7401 5 6.4568 -6.031 -3.2068 5.6317 2.9956 1.5918 0.1265 0.3402 -0.3876 0.0367 -0.4988 1.6153 -0.2727 -0.8924 0.3848 0.5273 -0.0391 0.1018 0.4488 -0.3035 0.9351 1.6458 14.8801 8.042 6 3.3502 3.0582 -4.3921 6.7374 -5.3605 6.997 -0.0213 0.0546 0.0268 -0.2274 0.1413 -0.4241 0.1888 0.0251 -0.1119 0.2032 -0.0692 -0.0244 0.174 -0.1068 0.4055 10.2469 -15.3864 -4.9882 7 2.0001 1.9821 -4.2743 5.8236 0.396 8.7702 -0.0542 -0.2472 0.74 -0.04 -0.0793 0.2605 -0.3606 -0.2664 0.121 0.2647 -0.089 -0.1625 0.3088 -0.1552 0.4551 6.6776 -18.4351 -5.3258 8 1.8703 3.9567 -1.0523 8.3738 -2.1224 3.4188 -0.0402 -0.1007 -0.6323 0.108 -0.0847 0.3061 0.054 -0.1332 0.1183 0.2665 -0.1104 -0.1141 0.358 0.0113 0.7538 3.0842 -21.4147 -3.1219 9 2.1112 0.3225 0.7616 0.0489 0.116 0.2742 0.3654 -0.6816 -1.134 0.2411 -0.008 -0.0101 0.6452 -0.2844 -0.3795 0.2222 -0.0775 -0.2385 0.4496 0.1858 0.5552 5.9905 -23.9796 0.2881 10 7.3501 1.9998 -5.0201 1.9999 2.0001 7.3842 0.1363 0.0172 -0.8342 0.2293 -0.1162 0.9808 1.1358 -0.6354 -0.0187 0.2674 -0.1147 -0.1191 0.1996 0.0652 0.1661 10.5902 -23.8848 1.5181 11 5.3149 2.4541 -4.0602 2 -6.8714 2.0001 0.0001 0.0358 -0.1112 -0.3283 -0.1431 0.1737 -0.0057 -0.1245 0.1382 0.1076 0.0266 -0.0594 0.0774 -0.066 0.3134 15.2986 -21.8626 0.4445 12 0.7719 -2.4027 0.1289 7.4781 -0.4012 0.0216 0.0575 0.2316 -0.1089 -0.6296 0.1314 -0.3046 -0.1105 0.0886 -0.1973 0.1572 -0.0906 -0.0398 0.1154 -0.0813 0.2338 18.6616 -17.9241 -0.4578 13 2.4751 1.171 -1.6936 0.6244 -0.5366 2.15 0.1132 -0.32 -0.2442 0.0646 -0.1871 0.0004 0.1706 -0.0596 0.0713 0.092 -0.0504 -0.0907 0.2537 0.0015 0.371 21.0698 -14.0557 0.3741 14 7.1087 -1.0558 0.3255 3.7987 4.5716 8.8464 0.0421 0.1085 -0.0571 -0.0621 0.0616 -0.0687 0.0071 0.057 -0.0897 0.1704 -0.0397 -0.2371 0.1501 0.0013 0.4571 22.0845 -10.4686 4.1798 15 3.7061 1.2876 -1.6279 0.7979 0.1926 2.3546 -0.0556 -0.0544 0.1052 0.1404 0.0317 0.3813 -0.192 -0.1459 0.0299 0.1886 -0.1346 -0.1866 0.3056 -0.0974 0.3482 22.5067 -9.7148 9.7014 16 3.9359 3.417 0.8415 3.4565 2.7748 8.7062 -0.2119 -0.0508 0.5124 -0.0292 -0.1557 0.3956 -0.3811 -0.461 0.3751 0.3066 -0.0116 -0.2516 0.4608 -0.0987 0.4293 24.1047 -10.0056 14.34 17 6.6275 -3.0399 -1.7723 8.6512 3.3581 7.4103 -0.0284 -0.3515 0.059 0.0768 -0.0524 0.3172 -0.0064 -0.6914 0.0885 0.4187 -0.0629 -0.3418 0.6641 -0.0298 0.464 26.4303 -12.2192 18.4634 18 7.9095 3.2285 -2.8515 9.4706 -2.0432 8.3752 0.0244 -0.9276 -0.3673 0.193 0.1176 0.4693 0.3882 -1.033 -0.1486 0.4892 -0.0179 -0.4769 0.5662 0.0673 0.5472 29.1716 -16.238 21.1211 19 6.5222 7.7221 -2.802 9.1452 -3.4716 1.9998 0.404 -0.3466 -1.2769 0.0448 -0.212 -0.0303 0.8289 0.2244 -0.1983 0.5449 0.184 -0.4336 0.9397 0.1659 0.894 32.7391 -19.3751 21.8163 20 2.0001 -9.7708 -1.3905 7.0289 -0.1412 1.9999 0.6398 -0.145 -1.7782 -0.3529 -0.1689 1.0909 0.8459 -0.9007 -0.4809 0.4742 0.1004 -0.3794 0.8653 0.0773 0.9864 37.4762 -20.9167 20.7013 21 4.6048 1.9698 5.5098 1.9999 6.9204 8.0856 0.414 0.2709 -1.0633 -0.002 0.0098 -0.266 0.5408 0.6152 -0.4414 0.5372 0.0265 -0.5113 0.8821 -0.0267 1.0909 42.4807 -20.59 19.9254 22 6.5829 -7.0558 -4.8508 8.911 7.3437 7.5895 0.5798 0.6857 -1.1159 0.0636 0.013 -1.0593 0.6205 0.7535 -0.5981 0.621 0.0549 -0.5408 1.0271 -0.1491 1.2493 46.7948 -18.604 19.8199 23 7.1843 -1.3661 -8.9838 0.2593 1.7084 1.9999 0.1721 2.0417 -0.6589 -0.7179 0.4397 0.1586 0.7431 0.8174 -0.6151 0.8999 -0.1123 -0.725 1.1607 0.001 1.2527 52.1433 -15.5131 22.4558 24 9.4845 -1.1848 2.0001 3.8439 4.1717 2 -1.6065 -0.9775 4.0738 0.3325 0.1902 0.6199 -2.9971 -1.4291 1.4244 0.9095 0.1623 -0.6672 0.9005 -0.0746 1.3003 47.2645 -12.4838 31.2321 25 2 3.5917 1.2059 1.9999 6.0623 7.4595 -0.7867 -2.1804 2.4144 1.5505 -0.1574 -0.832 -1.2766 -0.033 0.9545 0.9325 0.1309 -0.7551 1.1241 -0.1216 1.2817 42.8476 -11.1945 27.792 26 2 4.5035 -4.8664 9.9103 -9.6176 9.3631 -1.1742 -1.5571 3.8149 1.1881 -0.5397 -0.5553 -2.9293 1.3046 1.7262 1.0404 0.0247 -0.7577 1.0751 -0.1051 1.413 40.9644 -9.4604 23.5076 27 2 2 2.0001 1.9999 1.9998 1.9999 -0.1011 -2.6457 2.8019 2.1708 -1.403 -1.2246 -2.6039 1.3119 1.5104 0.9197 -0.1053 -0.6465 0.852 0.1186 1.1236 40.4669 -10.1526 17.9514 28 2 -9.4342 -5.1702 5.8319 1.9595 1.9999 -0.641 0.9936 3.4148 0.0755 0.1519 -0.8914 -1.3151 1.6118 0.497 0.4757 -0.0424 -0.4353 0.607 0.0582 0.9561 39.1633 -12.5867 14.4098 29 2 1.9999 -0.7631 8.8488 2.9381 9.6769 0.0434 0.5875 0.3309 0.2343 0.196 -1.1193 0.0053 0.7271 -0.2473 0.3777 -0.0909 -0.3952 0.4883 0.049 0.9063 36.7189 -16.0425 12.1149 30 6.5249 4.6548 3.759 7.5442 0.1162 4.4346 0.334 0.4962 -0.7702 0.2218 0.1199 -1.1891 0.5788 0.4141 -0.4613 0.2704 0.0456 -0.3546 0.3786 -0.0534 0.7158 32.7251 -18.9423 11.2425 31 7.4525 2.1806 3.9115 3.9831 -0.6643 5.7739 0.1231 0.1513 -0.3747 0.0248 -0.0702 -0.0479 0.1747 0.1889 -0.0571 0.186 -0.0178 -0.2495 0.3845 0.0894 0.5796 28.3046 -20.8349 13.0256 32 0.7162 -1.3173 1.2531 2.4466 -2.4308 2.8614 0.2117 -0.7581 -1.08 0.06 0.198 0.1227 0.7163 0.2023 -0.4149 0.251 0.0506 -0.2653 0.4003 0.0352 0.643 24.2509 -20.321 15.1439 33 2 4.5251 -1.7974 3.3359 3.4476 2.0001 0.1972 -0.3476 -0.3206 0.2036 -0.0498 -0.152 0.3343 0.3198 -0.1434 0.259 -0.0576 -0.2081 0.3704 0.009 0.3915 20.0925 -17.3817 13.9206 34 3.3126 -1.5999 -0.4135 2.3372 1.0912 0.5592 -0.0252 -0.3845 -0.0804 0.1903 0.1302 -0.0507 0.181 0.0268 -0.1009 0.1941 0.0267 -0.2076 0.4 0.0223 0.3325 16.5914 -14.5714 11.79 35 4.4854 2.4178 4.0411 9.6097 4.3831 4.2257 -0.0708 -0.058 0.1169 0.0514 0.0337 -0.0059 0.0182 -0.0612 0.0369 0.1785 0.0327 -0.188 0.1515 -0.1036 0.4335 14.1713 -11.8767 8.4306 36 4.9092 1.3444 0.6989 2.0001 -2.0768 1.8852 0.0051 -0.4091 0.3981 0.3088 -0.0688 0.1998 -0.2901 -0.0381 0.0481 0.1777 0.0096 -0.0078 0.131 -0.0584 0.0446 12.847 -10.8066 3.4657 37 0.4835 -0.2861 -0.4983 0.1691 0.2948 0.5132 -0.0874 0.0673 -0.0794 -0.1166 0.0355 -0.0755 0.0864 -0.0279 0.0582 0.1521 -0.0962 -0.0268 0.1166 -0.031 0.2544 11.3843 -13.2846 -1.0332
Refinement TLS group Show large table (4 x 37) Hide large table ID Refine-ID Refine TLS-ID Selection details 1 X-RAY DIFFRACTION 1 chain A and resid 103:1222 X-RAY DIFFRACTION 2 chain A and resid 124:1953 X-RAY DIFFRACTION 3 chain A and resid 197:2194 X-RAY DIFFRACTION 4 chain A and resid 220:4095 X-RAY DIFFRACTION 5 chain A and resid 410:4216 X-RAY DIFFRACTION 6 chain C and resid 15:157 X-RAY DIFFRACTION 7 chain C and resid 16:168 X-RAY DIFFRACTION 8 chain C and resid 17:179 X-RAY DIFFRACTION 9 chain C and resid 18:1810 X-RAY DIFFRACTION 10 chain C and resid 19:1911 X-RAY DIFFRACTION 11 chain C and resid 20:2012 X-RAY DIFFRACTION 12 chain C and resid 21:2113 X-RAY DIFFRACTION 13 chain C and resid 22:2214 X-RAY DIFFRACTION 14 chain C and resid 23:2315 X-RAY DIFFRACTION 15 chain C and resid 24:2416 X-RAY DIFFRACTION 16 chain C and resid 25:2517 X-RAY DIFFRACTION 17 chain C and resid 26:2618 X-RAY DIFFRACTION 18 chain C and