Software | Name | Version | Classification |
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CNS | 1.1 | refinementHKL-2000 | | data reductionSCALEPACK | | data scalingSOLVE | | phasing | | | |
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Refinement | Method to determine structure: MAD / Resolution: 2.8→19.65 Å / Rfactor Rfree error: 0.007 / Data cutoff high absF: 1777090.52 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0
| Rfactor | Num. reflection | % reflection | Selection details |
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Rfree | 0.3 | 1846 | 9.8 % | RANDOM |
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Rwork | 0.222 | - | - | - |
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obs | - | 18811 | 99.8 % | - |
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 27.9993 Å2 / ksol: 0.306747 e/Å3 |
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Displacement parameters | Biso mean: 41.5 Å2
| Baniso -1 | Baniso -2 | Baniso -3 |
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1- | 2.23 Å2 | 12.15 Å2 | 0 Å2 |
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2- | - | 2.23 Å2 | 0 Å2 |
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3- | - | - | -4.46 Å2 |
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Refine analyze | | Free | Obs |
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Luzzati coordinate error | 0.47 Å | 0.34 Å |
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Luzzati d res low | - | 5 Å |
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Luzzati sigma a | 0.64 Å | 0.41 Å |
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Refinement step | Cycle: LAST / Resolution: 2.8→19.65 Å
| Protein | Nucleic acid | Ligand | Solvent | Total |
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Num. atoms | 4536 | 0 | 36 | 35 | 4607 |
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Refine LS restraints | Refine-ID | Type | Dev ideal | Dev ideal target |
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X-RAY DIFFRACTION | c_bond_d0.007 | | X-RAY DIFFRACTION | c_angle_deg1.4 | | X-RAY DIFFRACTION | c_dihedral_angle_d21.7 | | X-RAY DIFFRACTION | c_improper_angle_d1.97 | | X-RAY DIFFRACTION | c_mcbond_it6.03 | 1.5 | X-RAY DIFFRACTION | c_mcangle_it9.45 | 2 | X-RAY DIFFRACTION | c_scbond_it9.85 | 2 | X-RAY DIFFRACTION | c_scangle_it13.93 | 2.5 | | | | | | | | |
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LS refinement shell | Resolution: 2.8→2.98 Å / Rfactor Rfree error: 0.022 / Total num. of bins used: 6
| Rfactor | Num. reflection | % reflection |
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Rfree | 0.381 | 298 | 9.4 % |
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Rwork | 0.296 | 2876 | - |
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obs | - | - | 99.4 % |
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Xplor file | Refine-ID | Serial no | Param file | Topol file |
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X-RAY DIFFRACTION | 1 | PROTEIN_REP.PARAMPROTEIN.TOPX-RAY DIFFRACTION | 2 | ATP.PARAM | X-RAY DIFFRACTION | 3 | ION.PARAM | X-RAY DIFFRACTION | 4 | WATER_REP.PARAM | | | | | |
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Refinement | *PLUS Highest resolution: 2.8 Å / Lowest resolution: 20 Å / Rfactor Rfree: 0.2997 / Rfactor Rwork: 0.2222 |
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Solvent computation | *PLUS |
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Displacement parameters | *PLUS |
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Refine LS restraints | *PLUS Refine-ID | Type | Dev ideal |
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X-RAY DIFFRACTION | c_dihedral_angle_d | X-RAY DIFFRACTION | c_dihedral_angle_deg21.7 | X-RAY DIFFRACTION | c_improper_angle_d | X-RAY DIFFRACTION | c_improper_angle_deg1.97 | | | | |
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