8xp8
Crystal structure of d(ACGmCCGT/ACGGCGT) in complex with Echinomycin
SAXS 散射曲线 SAXS Profile
P(r) 距离分布 P(r) Distribution
1. 结构基本信息 1. Structure Basics
| 条目编号 entry_id | 8xp8 |
| 沉积日期 deposition_date | 2024-01-03 |
| 结构标题 title | Crystal structure of d(ACGmCCGT/ACGGCGT) in complex with Echinomycin |
| 关键词 keywords | DNA-ligand Complex, DNA, Antibiotic, DNA-ANTIBIOTIC complex; DNA/ANTIBIOTIC |
| 实验方法 method | X-RAY DIFFRACTION |
2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)
| 回转半径 Rg (Guinier) rg_guinier | 12.50 Å |
| 回转半径 Rg (电子) rg_electron | 11.87 Å |
| 零角强度 I(0) i0 | 1736780.00 |
| 分子量 molecular_weight | 6614.0 kDa |
| 排除体积 excluded_volume | 7034 ų |
| 包络体积 envelope_volume | 7866 ų |
| 水化壳体积 shell_volume | 6399 ų |
| 包络直径 envelope_diameter | 40.2 Å |
| 壳层 Rg shell_rg | 15.91 Å |
| 包络 Rg envelope_rg | 12.21 Å |
| 形状 Rg shape_rg | 11.79 Å |
| 总 Rg total_rg | 12.73 Å |
| 总原子数 total_atoms | 439 |
| 残基数 n_residues | 17 |
| 球谐函数阶数 n_harmonics | 20 |
| q 范围 q_range | — – 0.5000 Å−1 |
| 数据点数 n_points | 101 |
| 壳层类型 shell_type | directional |
| 溶剂电子密度 solvent_density | 0.3340 e/ų |
| 壳层衬度 contrast_shell | 0.0300 e/ų |
| CRYSOL 版本 crysol_version | 4.1.3 |
3. P(r) 距离分布 (GNOM 反演) 3. P(r) Analysis (GNOM)
| 最大尺寸 Dmax dmax | 42.5 Å |
| Rg (实空间) rg_real | 12.58 Å |
| Rg 误差 (实空间) rg_real_error | 0.31 Å |
| I(0) (实空间) i0_real | 1.7370e+06 |
| I(0) 误差 (实空间) i0_real_error | 1.9410e+04 |
| Rg (倒空间) rg_reciprocal | 12.57 Å |
| I(0) (倒空间) i0_reciprocal | 1737000.0000 |
| 解质量估计 total_estimate | 0.6855 |
| 解质量评级 solution_quality | REASONABLE a REASONABLE solution |
| P(r) 峰数 n_peaks | 2 |
| 主峰位置 r_peak_primary | 12.4 Å |
| 偏度 Skewness skewness | 0.443 |
| 峰度 Kurtosis kurtosis | -0.362 |
| 角度范围 angular_range | — – 0.5000 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 184100.0000 |
| 实空间数据点数 n_real_points | 80 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.822; Stabil: 1.000; Sysdev: 0.256; Positv: 1.000; Valcen: 0.773; Smooth: 0.898 |