ソフトウェア | 名称 | バージョン | 分類 |
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CNS | 1.2 | 精密化 | ADSC | Quantumデータ収集 | HKL-2000 | | データ削減 | HKL-2000 | | データスケーリング | SOLVE | | 位相決定 | |
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精密化 | 構造決定の手法: 多波長異常分散 / 解像度: 2.4→19.99 Å / Rfactor Rfree error: 0.003 / Data cutoff high absF: 79517.39 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / 交差検証法: THROUGHOUT / σ(F): 0 / 立体化学のターゲット値: Engh & Huber / 詳細: BULK SOLVENT MODEL USED
| Rfactor | 反射数 | %反射 | Selection details |
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Rfree | 0.282 | 7061 | 9.2 % | RANDOM |
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Rwork | 0.239 | - | - | - |
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obs | 0.239 | 77162 | 96.3 % | - |
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all | - | 80088 | - | - |
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溶媒の処理 | 溶媒モデル: FLAT MODEL / Bsol: 50.4775 Å2 / ksol: 0.4 e/Å3 |
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原子変位パラメータ | Biso mean: 47.3 Å2
| Baniso -1 | Baniso -2 | Baniso -3 |
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1- | -7.38 Å2 | 0 Å2 | 0 Å2 |
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2- | - | 12.47 Å2 | 0 Å2 |
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3- | - | - | -5.09 Å2 |
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Refine analyze | | Free | Obs |
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Luzzati coordinate error | 0.42 Å | 0.35 Å |
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Luzzati d res low | - | 5 Å |
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Luzzati sigma a | 0.48 Å | 0.44 Å |
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精密化ステップ | サイクル: LAST / 解像度: 2.4→19.99 Å
| タンパク質 | 核酸 | リガンド | 溶媒 | 全体 |
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原子数 | 10209 | 0 | 0 | 305 | 10514 |
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拘束条件 | Refine-ID | タイプ | Dev ideal | Dev ideal target |
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X-RAY DIFFRACTION | c_bond_d0.007 | | X-RAY DIFFRACTION | c_bond_d_na | | X-RAY DIFFRACTION | c_bond_d_prot | | X-RAY DIFFRACTION | c_angle_d | | X-RAY DIFFRACTION | c_angle_d_na | | X-RAY DIFFRACTION | c_angle_d_prot | | X-RAY DIFFRACTION | c_angle_deg1.4 | | X-RAY DIFFRACTION | c_angle_deg_na | | X-RAY DIFFRACTION | c_angle_deg_prot | | X-RAY DIFFRACTION | c_dihedral_angle_d24.5 | | X-RAY DIFFRACTION | c_dihedral_angle_d_na | | X-RAY DIFFRACTION | c_dihedral_angle_d_prot | | X-RAY DIFFRACTION | c_improper_angle_d0.77 | | X-RAY DIFFRACTION | c_improper_angle_d_na | | X-RAY DIFFRACTION | c_improper_angle_d_prot | | X-RAY DIFFRACTION | c_mcbond_it5.12 | 1.5 | X-RAY DIFFRACTION | c_mcangle_it6.98 | 2 | X-RAY DIFFRACTION | c_scbond_it2.79 | 2 | X-RAY DIFFRACTION | c_scangle_it4.06 | 2.5 | | | | | | | | | | | | | | | | | | | |
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LS精密化 シェル | 解像度: 2.4→2.55 Å / Rfactor Rfree error: 0.019 / Total num. of bins used: 6
| Rfactor | 反射数 | %反射 |
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Rfree | 0.364 | 384 | 3.5 % |
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Rwork | 0.34 | 10482 | - |
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obs | - | - | 82.5 % |
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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 | dna-rna_rep.param | dna-rna.top | X-RAY DIFFRACTION | 3 | water_rep.paramwater.topX-RAY DIFFRACTION | 4 | ion.paramion.top | | | | | |
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