8w4d
Crystal structure of the sigma-1 receptor from Xenopus laevis in the absence of known ligands
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 | 8w4d |
| 沉积日期 deposition_date | 2023-08-23 |
| 最后修订 last_revision | 2024-07-17 |
| 结构标题 title | Crystal structure of the sigma-1 receptor from Xenopus laevis in the absence of known ligands |
| 关键词 keywords | sigma receptor, S1R, endogenous ligand, neurosteroid, P4, MEMBRANE PROTEIN; MEMBRANE PROTEIN |
| 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 | 19.93 Å |
| 回转半径 Rg (电子) rg_electron | 19.50 Å |
| 零角强度 I(0) i0 | 10414100.00 |
| 分子量 molecular_weight | 24995.0 kDa |
| 排除体积 excluded_volume | 31721 ų |
| 包络体积 envelope_volume | 38777 ų |
| 水化壳体积 shell_volume | 17705 ų |
| 包络直径 envelope_diameter | 78.4 Å |
| 壳层 Rg shell_rg | 24.68 Å |
| 包络 Rg envelope_rg | 20.52 Å |
| 形状 Rg shape_rg | 19.42 Å |
| 总 Rg total_rg | 20.58 Å |
| 总原子数 total_atoms | 1769 |
| 残基数 n_residues | 225 |
| 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 | 75.8 Å |
| Rg (实空间) rg_real | 20.14 Å |
| Rg 误差 (实空间) rg_real_error | 0.78 Å |
| I(0) (实空间) i0_real | 1.0410e+07 |
| I(0) 误差 (实空间) i0_real_error | 1.4890e+05 |
| Rg (倒空间) rg_reciprocal | 20.11 Å |
| I(0) (倒空间) i0_reciprocal | 10410000.0000 |
| 解质量估计 total_estimate | 0.6848 |
| 解质量评级 solution_quality | REASONABLE a REASONABLE solution |
| P(r) 峰数 n_peaks | 4 |
| 主峰位置 r_peak_primary | 25.6 Å |
| 偏度 Skewness skewness | 0.768 |
| 峰度 Kurtosis kurtosis | 0.854 |
| 角度范围 angular_range | — – 0.4000 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 1783000.0000 |
| 实空间数据点数 n_real_points | 72 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.388; Stabil: 0.995; Sysdev: 1.000; Positv: 1.000; Valcen: 0.751; Smooth: 0.000 |