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Crystal structure of the Fab fragment from the monoclonal antibody cetuximab/Erbitux/IMC-C225
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 | 1yy8 |
| 沉积日期 deposition_date | 2005-02-24 |
| 结构标题 title | Crystal structure of the Fab fragment from the monoclonal antibody cetuximab/Erbitux/IMC-C225 |
| 关键词 keywords | FAB FRAGMENT; ANTIBODY DRUG; CANCER, IMMUNE SYSTEM; IMMUNE SYSTEM |
| 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 | 61.07 Å |
| 回转半径 Rg (电子) rg_electron | 62.08 Å |
| 零角强度 I(0) i0 | 126523000.00 |
| 分子量 molecular_weight | 93665.0 kDa |
| 排除体积 excluded_volume | 116690 ų |
| 包络体积 envelope_volume | 185830 ų |
| 水化壳体积 shell_volume | 24945 ų |
| 包络直径 envelope_diameter | 190.0 Å |
| 壳层 Rg shell_rg | 65.06 Å |
| 包络 Rg envelope_rg | 58.81 Å |
| 形状 Rg shape_rg | 62.07 Å |
| 总 Rg total_rg | 62.16 Å |
| 总原子数 total_atoms | 6604 |
| 残基数 n_residues | 868 |
| 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 | 204.7 Å |
| Rg (实空间) rg_real | 62.19 Å |
| Rg 误差 (实空间) rg_real_error | 3.35 Å |
| I(0) (实空间) i0_real | 1.2650e+08 |
| I(0) 误差 (实空间) i0_real_error | 3.0020e+06 |
| Rg (倒空间) rg_reciprocal | 59.96 Å |
| I(0) (倒空间) i0_reciprocal | 126000000.0000 |
| 解质量估计 total_estimate | 0.5559 |
| 解质量评级 solution_quality | REASONABLE a REASONABLE solution |
| P(r) 峰数 n_peaks | 3 |
| 主峰位置 r_peak_primary | 31.5 Å |
| 偏度 Skewness skewness | 0.269 |
| 峰度 Kurtosis kurtosis | -1.345 |
| 角度范围 angular_range | — – 0.1300 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 3337000.0000 |
| 实空间数据点数 n_real_points | 27 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.001; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.017; Smooth: 0.202 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (3)
6. 折叠分类 (SCOP + CATH) 8 domains
CATH v4.4 (8 domains)
| 结构域编号 domain_id | 1yy8A01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Immunoglobulins |
| 结构域编号 domain_id | 1yy8A02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Immunoglobulins |
| 结构域编号 domain_id | 1yy8B01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Immunoglobulins |
| 结构域编号 domain_id | 1yy8B02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Immunoglobulins |
| 结构域编号 domain_id | 1yy8C01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Immunoglobulins |
| 结构域编号 domain_id | 1yy8C02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Immunoglobulins |
| 结构域编号 domain_id | 1yy8D01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Immunoglobulins |
| 结构域编号 domain_id | 1yy8D02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Immunoglobulins |