1u5w
Crystal structure of hypothetical protein yjjX from Escherichia coli
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 | 1u5w |
| 沉积日期 deposition_date | 2004-07-28 |
| 结构标题 title | Crystal structure of hypothetical protein yjjX from Escherichia coli |
| 关键词 keywords | ;3 layers Alpha/Beta/Alpha protein, Montreal-Kingston Bacterial Structural Genomics Initiative, BSGI, Structural Genomics, UNKNOWN FUNCTION ;; UNKNOWN FUNCTION |
| 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 | 38.83 Å |
| 回转半径 Rg (电子) rg_electron | 38.56 Å |
| 零角强度 I(0) i0 | 341474000.00 |
| 分子量 molecular_weight | 146920.0 kDa |
| 排除体积 excluded_volume | 182520 ų |
| 包络体积 envelope_volume | 237100 ų |
| 水化壳体积 shell_volume | 51751 ų |
| 包络直径 envelope_diameter | 133.3 Å |
| 壳层 Rg shell_rg | 43.86 Å |
| 包络 Rg envelope_rg | 37.89 Å |
| 形状 Rg shape_rg | 38.55 Å |
| 总 Rg total_rg | 38.87 Å |
| 总原子数 total_atoms | 10335 |
| 残基数 n_residues | 1362 |
| 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 | 129.0 Å |
| Rg (实空间) rg_real | 38.90 Å |
| Rg 误差 (实空间) rg_real_error | 1.23 Å |
| I(0) (实空间) i0_real | 3.4150e+08 |
| I(0) 误差 (实空间) i0_real_error | 5.9170e+06 |
| Rg (倒空间) rg_reciprocal | 38.87 Å |
| I(0) (倒空间) i0_reciprocal | 341500000.0000 |
| 解质量估计 total_estimate | 0.8871 |
| 解质量评级 solution_quality | GOOD a GOOD solution |
| P(r) 峰数 n_peaks | 1 |
| 主峰位置 r_peak_primary | 40.9 Å |
| 偏度 Skewness skewness | 0.329 |
| 峰度 Kurtosis kurtosis | -0.547 |
| 角度范围 angular_range | — – 0.2050 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 50790000.0000 |
| 实空间数据点数 n_real_points | 42 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.888; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.978; Smooth: 0.887 |
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) 28 domains
SCOP 2.08 (20 domains)
| 结构域编号 domain_id | d1u5wa1 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.51 — Anticodon-binding domain-like |
| 超家族 Superfamily superfamily | c.51.4 — ITPase-like |
| 家族 Family family | c.51.4.3 — YjjX-like |
| 结构域编号 domain_id | d1u5wa2 |
| 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 | d1u5wb2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.51 — Anticodon-binding domain-like |
| 超家族 Superfamily superfamily | c.51.4 — ITPase-like |
| 家族 Family family | c.51.4.3 — YjjX-like |
| 结构域编号 domain_id | d1u5wb3 |
| 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 | d1u5wb4 |
| 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 | d1u5wc2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.51 — Anticodon-binding domain-like |
| 超家族 Superfamily superfamily | c.51.4 — ITPase-like |
| 家族 Family family | c.51.4.3 — YjjX-like |
| 结构域编号 domain_id | d1u5wc3 |
| 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 | d1u5wc4 |
| 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 | d1u5wd2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.51 — Anticodon-binding domain-like |
| 超家族 Superfamily superfamily | c.51.4 — ITPase-like |
| 家族 Family family | c.51.4.3 — YjjX-like |
| 结构域编号 domain_id | d1u5wd3 |
| 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 | d1u5wd4 |
| 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 | d1u5we2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.51 — Anticodon-binding domain-like |
| 超家族 Superfamily superfamily | c.51.4 — ITPase-like |
| 家族 Family family | c.51.4.3 — YjjX-like |
| 结构域编号 domain_id | d1u5we3 |
| 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 | d1u5we4 |
| 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 | d1u5wf2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.51 — Anticodon-binding domain-like |
| 超家族 Superfamily superfamily | c.51.4 — ITPase-like |
| 家族 Family family | c.51.4.3 — YjjX-like |
| 结构域编号 domain_id | d1u5wf3 |
| 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 | d1u5wg2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.51 — Anticodon-binding domain-like |
| 超家族 Superfamily superfamily | c.51.4 — ITPase-like |
| 家族 Family family | c.51.4.3 — YjjX-like |
| 结构域编号 domain_id | d1u5wg3 |
| 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 | d1u5wg4 |
| 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 | d1u5wh_ |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.51 — Anticodon-binding domain-like |
| 超家族 Superfamily superfamily | c.51.4 — ITPase-like |
| 家族 Family family | c.51.4.3 — YjjX-like |
CATH v4.4 (8 domains)
| 结构域编号 domain_id | 1u5wA00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 950 — Maf protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1u5wB00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 950 — Maf protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1u5wC00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 950 — Maf protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1u5wD00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 950 — Maf protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1u5wE00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 950 — Maf protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1u5wF00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 950 — Maf protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1u5wG00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 950 — Maf protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1u5wH00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 950 — Maf protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |