2aai
Crystallographic refinement of ricin to 2.5 Angstroms
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 | 2aai |
| 沉积日期 deposition_date | 1993-09-07 |
| 结构标题 title | Crystallographic refinement of ricin to 2.5 Angstroms |
| 关键词 keywords | GLYCOSIDASE, HYDROLASE; HYDROLASE |
| 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 | 26.46 Å |
| 回转半径 Rg (电子) rg_electron | 25.47 Å |
| 零角强度 I(0) i0 | 63708200.00 |
| 分子量 molecular_weight | 61358.0 kDa |
| 排除体积 excluded_volume | 76415 ų |
| 包络体积 envelope_volume | 92008 ų |
| 水化壳体积 shell_volume | 30305 ų |
| 包络直径 envelope_diameter | 88.0 Å |
| 壳层 Rg shell_rg | 32.64 Å |
| 包络 Rg envelope_rg | 25.44 Å |
| 形状 Rg shape_rg | 25.47 Å |
| 总 Rg total_rg | 26.21 Å |
| 总原子数 total_atoms | 4317 |
| 残基数 n_residues | 529 |
| 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 | 84.4 Å |
| Rg (实空间) rg_real | 26.43 Å |
| Rg 误差 (实空间) rg_real_error | 0.54 Å |
| I(0) (实空间) i0_real | 6.3710e+07 |
| I(0) 误差 (实空间) i0_real_error | 8.1440e+05 |
| Rg (倒空间) rg_reciprocal | 26.44 Å |
| I(0) (倒空间) i0_reciprocal | 63710000.0000 |
| 解质量估计 total_estimate | 0.7364 |
| 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 | 29.6 Å |
| 偏度 Skewness skewness | 0.323 |
| 峰度 Kurtosis kurtosis | -0.401 |
| 角度范围 angular_range | — – 0.3000 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 12210000.0000 |
| 实空间数据点数 n_real_points | 61 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.911; Stabil: 1.000; Sysdev: 0.291; Positv: 1.000; Valcen: 0.997; Smooth: 0.968 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (5)
6. 折叠分类 (SCOP + CATH) 7 domains
SCOP 2.08 (3 domains)
| 结构域编号 domain_id | d2aaia_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.165 — Ribosome inactivating proteins (RIP) |
| 超家族 Superfamily superfamily | d.165.1 — Ribosome inactivating proteins (RIP) |
| 家族 Family family | d.165.1.1 — Plant cytotoxins |
| 结构域编号 domain_id | d2aaib1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.42 — beta-Trefoil |
| 超家族 Superfamily superfamily | b.42.2 — Ricin B-like lectins |
| 家族 Family family | b.42.2.1 — Ricin B-like |
| 结构域编号 domain_id | d2aaib2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.42 — beta-Trefoil |
| 超家族 Superfamily superfamily | b.42.2 — Ricin B-like lectins |
| 家族 Family family | b.42.2.1 — Ricin B-like |
CATH v4.4 (4 domains)
| 结构域编号 domain_id | 2aaiA01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 420 — Ricin (A subunit); domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Ricin (A subunit), domain 1 |
| 结构域编号 domain_id | 2aaiA02 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 470 — Ricin (A Subunit), domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Ricin (A Subunit), domain 2 |
| 结构域编号 domain_id | 2aaiB01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 80 — Trefoil |
| 拓扑 Topology topology | 10 — Trefoil (Acidic Fibroblast Growth Factor, subunit A) |
| 同源超家族 H-superfamily homologous superfamily | 50 — |
| 结构域编号 domain_id | 2aaiB02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 80 — Trefoil |
| 拓扑 Topology topology | 10 — Trefoil (Acidic Fibroblast Growth Factor, subunit A) |
| 同源超家族 H-superfamily homologous superfamily | 50 — |