SAXS 散射曲线 SAXS Profile
P(r) 距离分布 P(r) Distribution
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| 条目编号 entry_id | 8ib0 |
| 沉积日期 deposition_date | 2023-02-09 |
| 结构标题 title | The amyloid structure of mouse RIPK1 RHIM-containing domain by solid-state NMR |
| 关键词 keywords | Necroptosis, RIPK1, RHIM, SSNMR, PROTEIN FIBRIL; PROTEIN FIBRIL |
| 实验方法 method | SOLID-STATE NMR |
| 回转半径 Rg (Guinier) rg_guinier | 13.31 Å |
| 回转半径 Rg (电子) rg_electron | 13.27 Å |
| 零角强度 I(0) i0 | 263554000.00 |
| 分子量 molecular_weight | 134950.0 kDa |
| 排除体积 excluded_volume | 167880 ų |
| 包络体积 envelope_volume | 23357 ų |
| 水化壳体积 shell_volume | 13642 ų |
| 包络直径 envelope_diameter | 46.6 Å |
| 壳层 Rg shell_rg | 20.38 Å |
| 包络 Rg envelope_rg | 14.53 Å |
| 形状 Rg shape_rg | 13.28 Å |
| 总 Rg total_rg | 13.42 Å |
| 总原子数 total_atoms | 18600 |
| 残基数 n_residues | 1200 |
| 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 |
| 最大尺寸 Dmax dmax | 41.3 Å |
| Rg (实空间) rg_real | 13.18 Å |
| Rg 误差 (实空间) rg_real_error | 0.20 Å |
| I(0) (实空间) i0_real | 2.6360e+08 |
| I(0) 误差 (实空间) i0_real_error | 2.7760e+06 |
| Rg (倒空间) rg_reciprocal | 13.18 Å |
| I(0) (倒空间) i0_reciprocal | 263600000.0000 |
| 解质量估计 total_estimate | 0.8140 |
| 解质量评级 solution_quality |
GOOD
a GOOD solution
|
| P(r) 峰数 n_peaks | 2 |
| 主峰位置 r_peak_primary | 18.8 Å |
| 偏度 Skewness skewness | -0.036 |
| 峰度 Kurtosis kurtosis | -0.457 |
| 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 | 246600.0000 |
| 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: 0.864;
Stabil: 1.000;
Sysdev: 1.000;
Positv: 1.000;
Valcen: 0.985;
Smooth: 0.000
|
Entity 1
polymer
| 描述 description | Receptor-interacting serine/threonine-protein kinase 1 |
| 分子量 formula_weight | 2702.0 kDa |
| EC 编号 ec_number | 2.7.11.1 |
| 来源方法 src_method | man |
| 拷贝数 entity_count | 5 |
聚合体 Polymer
| 聚合体类型 type | polypeptide(L) |
| 链编号 strand_id | A,B,C,D,E |
| 原子数 atom_count | 18600 |
DLIKYTIFNSSGIQIGNHNYMDVG
来源 Source
| 来源生物 organism | Mus musculus |
| 通用名 common_name | house mouse |
| NCBI 分类编号 ncbi_taxonomy_id | 10090 |
| 宿主生物 host_organism | Escherichia coli |
The structure of mouse RIPK1 RHIM-containing domain as a homo-amyloid and in RIPK1/RIPK3 complex.
Nat Commun (2024)
Files (7)
- pr_distribution /app/data/pr_computation/ib/8ib0/pr_distribution.json
- pr_output /app/data/pr_computation/ib/8ib0/8ib0.pr.out
- pr_plot /app/data/visualization/pr_computation/ib/8ib0/8ib0_pr_distribution.png
- saxs_curve_dat /app/data/saxs_computation/ib/8ib0/8ib0.dat
- saxs_fit /app/data/saxs_computation/ib/8ib0/8ib0.fit
- saxs_log /app/data/saxs_computation/ib/8ib0/8ib0.log
- saxs_plot /app/data/visualization/saxs_computation/ib/8ib0/8ib0_saxs_profile.png
Curves (3)
| fit |
/app/data/saxs_computation/ib/8ib0/8ib0.fit |
| pddf |
/app/data/pr_computation/ib/8ib0/8ib0.pr.out |
| profile |
/app/data/saxs_computation/ib/8ib0/8ib0.dat |