Software | Name | Version | Classification |
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Blu-Ice | | data collectionSOLVE | | phasingREFMAC | 5.5.0109refinementMOSFLM | | data reductionSCALA | | data scaling | | | | | |
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Refinement | Method to determine structure: MAD / Resolution: 2.6→20 Å / Cor.coef. Fo:Fc: 0.924 / Cor.coef. Fo:Fc free: 0.909 / SU B: 15.783 / SU ML: 0.168 / Cross valid method: THROUGHOUT / ESU R: 0.28 / ESU R Free: 0.225 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
| Rfactor | Num. reflection | % reflection | Selection details |
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Rfree | 0.24082 | 1123 | 5.2 % | RANDOM |
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Rwork | 0.21229 | - | - | - |
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obs | 0.21377 | 20666 | 100 % | - |
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all | - | 21847 | - | - |
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK |
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Displacement parameters | Biso mean: 43.54 Å2
| Baniso -1 | Baniso -2 | Baniso -3 |
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1- | -0.11 Å2 | -0.06 Å2 | 0 Å2 |
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2- | - | -0.11 Å2 | 0 Å2 |
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3- | - | - | 0.17 Å2 |
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Refinement step | Cycle: LAST / Resolution: 2.6→20 Å
| Protein | Nucleic acid | Ligand | Solvent | Total |
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Num. atoms | 2461 | 0 | 32 | 59 | 2552 |
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Refine LS restraints | Refine-ID | Type | Dev ideal | Dev ideal target | Number |
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X-RAY DIFFRACTION | r_bond_refined_d0.009 | 0.022 | 2567 | X-RAY DIFFRACTION | r_angle_refined_deg1.188 | 1.94 | 3467 | X-RAY DIFFRACTION | r_dihedral_angle_1_deg6.246 | 5 | 304 | X-RAY DIFFRACTION | r_dihedral_angle_2_deg38.576 | 24.565 | 138 | X-RAY DIFFRACTION | r_dihedral_angle_3_deg17.476 | 15 | 431 | X-RAY DIFFRACTION | r_dihedral_angle_4_deg21.658 | 15 | 14 | X-RAY DIFFRACTION | r_chiral_restr0.087 | 0.2 | 348 | X-RAY DIFFRACTION | r_gen_planes_refined0.004 | 0.021 | 2004 | X-RAY DIFFRACTION | r_mcbond_it0.326 | 1.5 | 1510 | X-RAY DIFFRACTION | r_mcangle_it0.65 | 2 | 2432 | X-RAY DIFFRACTION | r_scbond_it1.133 | 3 | 1057 | X-RAY DIFFRACTION | r_scangle_it1.875 | 4.5 | 1035 | | | | | | | | | | | | |
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LS refinement shell | Resolution: 2.6→2.667 Å / Total num. of bins used: 20
| Rfactor | Num. reflection | % reflection |
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Rfree | 0.323 | 94 | - |
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Rwork | 0.287 | 1468 | - |
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obs | - | - | 100 % |
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Refinement TLS params. | Method: refined / Origin x: 53.128 Å / Origin y: -49.4074 Å / Origin z: -24.0103 Å
| 11 | 12 | 13 | 21 | 22 | 23 | 31 | 32 | 33 |
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T | 0.0967 Å2 | -0.0452 Å2 | -0.0104 Å2 | - | 0.0277 Å2 | -0.0076 Å2 | - | - | 0.0531 Å2 |
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L | 3.2898 °2 | 0.5075 °2 | -0.2086 °2 | - | 1.1887 °2 | -0.2861 °2 | - | - | 1.9351 °2 |
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S | 0.0404 Å ° | -0.0696 Å ° | -0.0471 Å ° | -0.0483 Å ° | -0.0202 Å ° | 0.0695 Å ° | 0.2884 Å ° | -0.0815 Å ° | -0.0202 Å ° |
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