1qub
CRYSTAL STRUCTURE OF THE GLYCOSYLATED FIVE-DOMAIN HUMAN BETA2-GLYCOPROTEIN I PURIFIED FROM BLOOD PLASMA
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 | 1qub |
| 沉积日期 deposition_date | 1999-07-01 |
| 结构标题 title | CRYSTAL STRUCTURE OF THE GLYCOSYLATED FIVE-DOMAIN HUMAN BETA2-GLYCOPROTEIN I PURIFIED FROM BLOOD PLASMA |
| 关键词 keywords | SHORT CONSENSUS REPEAT, SUSHI, COMPLEMENT CONTROL PROTEIN, N-GLYCOSYLATION, MULTI-DOMAIN, MEMBRANE ADHESION; MEMBRANE ADHESION |
| 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 | 44.30 Å |
| 回转半径 Rg (电子) rg_electron | 45.71 Å |
| 零角强度 I(0) i0 | 21165700.00 |
| 分子量 molecular_weight | 36811.0 kDa |
| 排除体积 excluded_volume | 45966 ų |
| 包络体积 envelope_volume | 82457 ų |
| 水化壳体积 shell_volume | 17580 ų |
| 包络直径 envelope_diameter | 147.7 Å |
| 壳层 Rg shell_rg | 42.87 Å |
| 包络 Rg envelope_rg | 43.31 Å |
| 形状 Rg shape_rg | 45.68 Å |
| 总 Rg total_rg | 45.62 Å |
| 总原子数 total_atoms | 2575 |
| 残基数 n_residues | 319 |
| 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 | 137.2 Å |
| Rg (实空间) rg_real | 45.09 Å |
| Rg 误差 (实空间) rg_real_error | 1.72 Å |
| I(0) (实空间) i0_real | 2.1170e+07 |
| I(0) 误差 (实空间) i0_real_error | 3.8660e+05 |
| Rg (倒空间) rg_reciprocal | 44.31 Å |
| I(0) (倒空间) i0_reciprocal | 21150000.0000 |
| 解质量估计 total_estimate | 0.6341 |
| 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 | 19.1 Å |
| 偏度 Skewness skewness | 0.415 |
| 峰度 Kurtosis kurtosis | -0.805 |
| 角度范围 angular_range | — – 0.1800 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 594700.0000 |
| 实空间数据点数 n_real_points | 37 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.381; Stabil: 0.988; Sysdev: 1.000; Positv: 1.000; Valcen: 0.132; Smooth: 0.000 |
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) 10 domains
SCOP 2.08 (5 domains)
| 结构域编号 domain_id | d1quba1 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.18 — Complement control module/SCR domain |
| 超家族 Superfamily superfamily | g.18.1 — Complement control module/SCR domain |
| 家族 Family family | g.18.1.1 — Complement control module/SCR domain |
| 结构域编号 domain_id | d1quba2 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.18 — Complement control module/SCR domain |
| 超家族 Superfamily superfamily | g.18.1 — Complement control module/SCR domain |
| 家族 Family family | g.18.1.1 — Complement control module/SCR domain |
| 结构域编号 domain_id | d1quba3 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.18 — Complement control module/SCR domain |
| 超家族 Superfamily superfamily | g.18.1 — Complement control module/SCR domain |
| 家族 Family family | g.18.1.1 — Complement control module/SCR domain |
| 结构域编号 domain_id | d1quba4 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.18 — Complement control module/SCR domain |
| 超家族 Superfamily superfamily | g.18.1 — Complement control module/SCR domain |
| 家族 Family family | g.18.1.1 — Complement control module/SCR domain |
| 结构域编号 domain_id | d1quba5 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.18 — Complement control module/SCR domain |
| 超家族 Superfamily superfamily | g.18.1 — Complement control module/SCR domain |
| 家族 Family family | g.18.1.1 — Complement control module/SCR domain |
CATH v4.4 (5 domains)
| 结构域编号 domain_id | 1qubA01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 10 — Ribbon |
| 拓扑 Topology topology | 70 — Complement Module; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Complement Module, domain 1 |
| 结构域编号 domain_id | 1qubA02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 10 — Ribbon |
| 拓扑 Topology topology | 70 — Complement Module; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Complement Module, domain 1 |
| 结构域编号 domain_id | 1qubA03 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 10 — Ribbon |
| 拓扑 Topology topology | 70 — Complement Module; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Complement Module, domain 1 |
| 结构域编号 domain_id | 1qubA04 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 10 — Ribbon |
| 拓扑 Topology topology | 70 — Complement Module; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Complement Module, domain 1 |
| 结构域编号 domain_id | 1qubA05 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 10 — Ribbon |
| 拓扑 Topology topology | 70 — Complement Module; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Complement Module, domain 1 |