1xja
Apo form of the Y31V mutant dimerization domain fragment of Escherichia coli regulatory protein AraC
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 | 1xja |
| 沉积日期 deposition_date | 2004-09-23 |
| 结构标题 title | Apo form of the Y31V mutant dimerization domain fragment of Escherichia coli regulatory protein AraC |
| 关键词 keywords | Transcription factor, Coiled-coil, Jelly roll, Allostery, Arabinose, Carbohydrate binding, AraC, TRANSCRIPTION; TRANSCRIPTION |
| 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 | 46.26 Å |
| 回转半径 Rg (电子) rg_electron | 47.41 Å |
| 零角强度 I(0) i0 | 126184000.00 |
| 分子量 molecular_weight | 93907.0 kDa |
| 排除体积 excluded_volume | 118180 ų |
| 包络体积 envelope_volume | 166100 ų |
| 水化壳体积 shell_volume | 33669 ų |
| 包络直径 envelope_diameter | 168.6 Å |
| 壳层 Rg shell_rg | 42.50 Å |
| 包络 Rg envelope_rg | 47.57 Å |
| 形状 Rg shape_rg | 47.39 Å |
| 总 Rg total_rg | 47.26 Å |
| 总原子数 total_atoms | 6674 |
| 残基数 n_residues | 816 |
| 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 | 172.4 Å |
| Rg (实空间) rg_real | 47.24 Å |
| Rg 误差 (实空间) rg_real_error | 2.92 Å |
| I(0) (实空间) i0_real | 1.2620e+08 |
| I(0) 误差 (实空间) i0_real_error | 2.6410e+06 |
| Rg (倒空间) rg_reciprocal | 46.26 Å |
| I(0) (倒空间) i0_reciprocal | 126000000.0000 |
| 解质量估计 total_estimate | 0.6592 |
| 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 | 25.4 Å |
| 偏度 Skewness skewness | 0.588 |
| 峰度 Kurtosis kurtosis | -0.485 |
| 角度范围 angular_range | — – 0.1700 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 6995000.0000 |
| 实空间数据点数 n_real_points | 35 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.234; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.177; Smooth: 0.687 |
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 (5 domains)
| 结构域编号 domain_id | d1xjaa_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.82 — Double-stranded beta-helix |
| 超家族 Superfamily superfamily | b.82.4 — Regulatory protein AraC |
| 家族 Family family | b.82.4.1 — Regulatory protein AraC |
| 结构域编号 domain_id | d1xjab_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.82 — Double-stranded beta-helix |
| 超家族 Superfamily superfamily | b.82.4 — Regulatory protein AraC |
| 家族 Family family | b.82.4.1 — Regulatory protein AraC |
| 结构域编号 domain_id | d1xjac_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.82 — Double-stranded beta-helix |
| 超家族 Superfamily superfamily | b.82.4 — Regulatory protein AraC |
| 家族 Family family | b.82.4.1 — Regulatory protein AraC |
| 结构域编号 domain_id | d1xjad_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.82 — Double-stranded beta-helix |
| 超家族 Superfamily superfamily | b.82.4 — Regulatory protein AraC |
| 家族 Family family | b.82.4.1 — Regulatory protein AraC |
| 结构域编号 domain_id | d1xjae_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.82 — Double-stranded beta-helix |
| 超家族 Superfamily superfamily | b.82.4 — Regulatory protein AraC |
| 家族 Family family | b.82.4.1 — Regulatory protein AraC |
CATH v4.4 (5 domains)
| 结构域编号 domain_id | 1xjaA00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 280 — Regulatory protein AraC |
| 结构域编号 domain_id | 1xjaB00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 280 — Regulatory protein AraC |
| 结构域编号 domain_id | 1xjaC00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 280 — Regulatory protein AraC |
| 结构域编号 domain_id | 1xjaD00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 280 — Regulatory protein AraC |
| 结构域编号 domain_id | 1xjaE00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 280 — Regulatory protein AraC |