1v5n
Solution Structure of DC1 Domain of PDI-like Hypothetical Protein from Arabidopsis thaliana
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 | 1v5n |
| 沉积日期 deposition_date | 2003-11-25 |
| 结构标题 title | Solution Structure of DC1 Domain of PDI-like Hypothetical Protein from Arabidopsis thaliana |
| 关键词 keywords | ;DC1 Domain, Zinc Binding Domain, PDI-like Protein, Structural Genomics, RIKEN Structural Genomics/Proteomics Initiative, RSGI, UNKNOWN FUNCTION ;; STRUCTURAL GENOMICS, UNKNOWN FUNCTION |
| 实验方法 method | SOLUTION NMR |
2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)
| 回转半径 Rg (Guinier) rg_guinier | 16.28 Å |
| 回转半径 Rg (电子) rg_electron | 15.88 Å |
| 零角强度 I(0) i0 | 707749000.00 |
| 分子量 molecular_weight | 204390.0 kDa |
| 排除体积 excluded_volume | 246600 ų |
| 包络体积 envelope_volume | 45803 ų |
| 水化壳体积 shell_volume | 17681 ų |
| 包络直径 envelope_diameter | 86.5 Å |
| 壳层 Rg shell_rg | 28.35 Å |
| 包络 Rg envelope_rg | 25.08 Å |
| 形状 Rg shape_rg | 15.86 Å |
| 总 Rg total_rg | 16.27 Å |
| 总原子数 total_atoms | 27140 |
| 残基数 n_residues | 1780 |
| 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 | 43.9 Å |
| Rg (实空间) rg_real | 14.93 Å |
| Rg 误差 (实空间) rg_real_error | 0.11 Å |
| I(0) (实空间) i0_real | 6.7160e+08 |
| I(0) 误差 (实空间) i0_real_error | 6.8870e+06 |
| Rg (倒空间) rg_reciprocal | 16.64 Å |
| I(0) (倒空间) i0_reciprocal | 707700000.0000 |
| 解质量估计 total_estimate | 0.6816 |
| 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 | 16.3 Å |
| 偏度 Skewness skewness | 0.410 |
| 峰度 Kurtosis kurtosis | -0.359 |
| 角度范围 angular_range | — – 0.4900 Å−1 |
| 当前正则化参数 α current_alpha | 3.1470 |
| 最高正则化参数 α highest_alpha | 156700.0000 |
| 实空间数据点数 n_real_points | 79 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.007; Oscil: 0.975; Stabil: 0.987; Sysdev: 0.000; Positv: 1.000; Valcen: 0.978; Smooth: 0.000 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (2)
6. 折叠分类 (SCOP + CATH) 3 domains
SCOP 2.08 (3 domains)
| 结构域编号 domain_id | d1v5na1 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.49 — Cysteine-rich domain |
| 超家族 Superfamily superfamily | g.49.1 — Cysteine-rich domain |
| 家族 Family family | g.49.1.3 — C1-like domain |
| 结构域编号 domain_id | d1v5na2 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |
| 结构域编号 domain_id | d1v5na3 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |