1nub
HELIX C DELETION MUTANT OF BM-40 FS-EC DOMAIN PAIR
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 | 1nub |
| 沉积日期 deposition_date | 1997-12-05 |
| 结构标题 title | HELIX C DELETION MUTANT OF BM-40 FS-EC DOMAIN PAIR |
| 关键词 keywords | EXTRACELLULAR MODULE, GLYCOPROTEIN, ANTI-ADHESIVE PROTEIN, COLLAGEN BINDING, SITE-DIRECTED MUTAGENESIS, GLYCOSYLATED PROTEIN; EXTRACELLULAR MODULE |
| 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 | 32.36 Å |
| 回转半径 Rg (电子) rg_electron | 32.98 Å |
| 零角强度 I(0) i0 | 48380100.00 |
| 分子量 molecular_weight | 53435.0 kDa |
| 排除体积 excluded_volume | 66232 ų |
| 包络体积 envelope_volume | 89780 ų |
| 水化壳体积 shell_volume | 25646 ų |
| 包络直径 envelope_diameter | 131.6 Å |
| 壳层 Rg shell_rg | 35.03 Å |
| 包络 Rg envelope_rg | 33.08 Å |
| 形状 Rg shape_rg | 33.02 Å |
| 总 Rg total_rg | 33.03 Å |
| 总原子数 total_atoms | 3732 |
| 残基数 n_residues | 452 |
| 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 | 125.9 Å |
| Rg (实空间) rg_real | 32.98 Å |
| Rg 误差 (实空间) rg_real_error | 1.39 Å |
| I(0) (实空间) i0_real | 4.8380e+07 |
| I(0) 误差 (实空间) i0_real_error | 8.0710e+05 |
| Rg (倒空间) rg_reciprocal | 32.72 Å |
| I(0) (倒空间) i0_reciprocal | 48370000.0000 |
| 解质量估计 total_estimate | 0.5593 |
| 解质量评级 solution_quality | REASONABLE a REASONABLE solution |
| P(r) 峰数 n_peaks | 1 |
| 主峰位置 r_peak_primary | 28.3 Å |
| 偏度 Skewness skewness | 0.672 |
| 峰度 Kurtosis kurtosis | -0.117 |
| 角度范围 angular_range | — – 0.2450 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 4230000.0000 |
| 实空间数据点数 n_real_points | 50 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.422; Stabil: 1.000; Sysdev: 0.242; Positv: 1.000; Valcen: 0.284; Smooth: 0.989 |
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) 10 domains
SCOP 2.08 (6 domains)
| 结构域编号 domain_id | d1nuba1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.39 — EF Hand-like |
| 超家族 Superfamily superfamily | a.39.1 — EF-hand |
| 家族 Family family | a.39.1.3 — Osteonectin |
| 结构域编号 domain_id | d1nuba2 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.3 — Knottins (small inhibitors, toxins, lectins) |
| 超家族 Superfamily superfamily | g.3.11 — EGF/Laminin |
| 家族 Family family | g.3.11.3 — Follistatin (FS) module N-terminal domain, FS-N |
| 结构域编号 domain_id | d1nuba3 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.68 — Kazal-type serine protease inhibitors |
| 超家族 Superfamily superfamily | g.68.1 — Kazal-type serine protease inhibitors |
| 家族 Family family | g.68.1.1 — Ovomucoid domain III-like |
| 结构域编号 domain_id | d1nubb1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.39 — EF Hand-like |
| 超家族 Superfamily superfamily | a.39.1 — EF-hand |
| 家族 Family family | a.39.1.3 — Osteonectin |
| 结构域编号 domain_id | d1nubb2 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.3 — Knottins (small inhibitors, toxins, lectins) |
| 超家族 Superfamily superfamily | g.3.11 — EGF/Laminin |
| 家族 Family family | g.3.11.3 — Follistatin (FS) module N-terminal domain, FS-N |
| 结构域编号 domain_id | d1nubb3 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.68 — Kazal-type serine protease inhibitors |
| 超家族 Superfamily superfamily | g.68.1 — Kazal-type serine protease inhibitors |
| 家族 Family family | g.68.1.1 — Ovomucoid domain III-like |
CATH v4.4 (4 domains)
| 结构域编号 domain_id | 1nubA01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 60 — Wheat Germ Agglutinin (Isolectin 2); domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 30 — |
| 结构域编号 domain_id | 1nubA02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 238 — Recoverin; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — EF-hand |
| 结构域编号 domain_id | 1nubB01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 60 — Wheat Germ Agglutinin (Isolectin 2); domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 30 — |
| 结构域编号 domain_id | 1nubB02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 238 — Recoverin; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — EF-hand |