2jk6
Structure of Trypanothione Reductase from Leishmania infantum
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 | 2jk6 |
| 沉积日期 deposition_date | 2008-08-21 |
| 结构标题 title | Structure of Trypanothione Reductase from Leishmania infantum |
| 关键词 keywords | ;OXIDANT DETOXIFICATION, TRYPANOTHIONE METABOLISM, FAD, LEISHMANIA, TRYPANOSOMA, ANTIMONIALS, FLAVOPROTEIN, OXIDOREDUCTASE, REDOX-ACTIVE CENTER ;; OXIDOREDUCTASE |
| 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 | 31.84 Å |
| 回转半径 Rg (电子) rg_electron | 30.99 Å |
| 零角强度 I(0) i0 | 192611000.00 |
| 分子量 molecular_weight | 107600.0 kDa |
| 排除体积 excluded_volume | 133270 ų |
| 包络体积 envelope_volume | 165150 ų |
| 水化壳体积 shell_volume | 44179 ų |
| 包络直径 envelope_diameter | 109.2 Å |
| 壳层 Rg shell_rg | 38.52 Å |
| 包络 Rg envelope_rg | 31.02 Å |
| 形状 Rg shape_rg | 31.03 Å |
| 总 Rg total_rg | 31.46 Å |
| 总原子数 total_atoms | 7531 |
| 残基数 n_residues | 978 |
| 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 | 103.5 Å |
| Rg (实空间) rg_real | 31.79 Å |
| Rg 误差 (实空间) rg_real_error | 0.65 Å |
| I(0) (实空间) i0_real | 1.9260e+08 |
| I(0) 误差 (实空间) i0_real_error | 3.3620e+06 |
| Rg (倒空间) rg_reciprocal | 31.82 Å |
| I(0) (倒空间) i0_reciprocal | 192600000.0000 |
| 解质量估计 total_estimate | 0.6737 |
| 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 | 39.3 Å |
| 偏度 Skewness skewness | 0.329 |
| 峰度 Kurtosis kurtosis | -0.291 |
| 角度范围 angular_range | — – 0.2500 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 42000000.0000 |
| 实空间数据点数 n_real_points | 51 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.878; Stabil: 1.000; Sysdev: 0.062; Positv: 1.000; Valcen: 0.999; Smooth: 0.933 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (4)
6. 折叠分类 (SCOP + CATH) 12 domains
SCOP 2.08 (6 domains)
| 结构域编号 domain_id | d2jk6a1 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.3 — FAD/NAD(P)-binding domain |
| 超家族 Superfamily superfamily | c.3.1 — FAD/NAD(P)-binding domain |
| 家族 Family family | c.3.1.5 — FAD/NAD-linked reductases, N-terminal and central domains |
| 结构域编号 domain_id | d2jk6a2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.3 — FAD/NAD(P)-binding domain |
| 超家族 Superfamily superfamily | c.3.1 — FAD/NAD(P)-binding domain |
| 家族 Family family | c.3.1.5 — FAD/NAD-linked reductases, N-terminal and central domains |
| 结构域编号 domain_id | d2jk6a3 |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.87 — CO dehydrogenase flavoprotein C-domain-like |
| 超家族 Superfamily superfamily | d.87.1 — FAD/NAD-linked reductases, dimerisation (C-terminal) domain |
| 家族 Family family | d.87.1.1 — FAD/NAD-linked reductases, dimerisation (C-terminal) domain |
| 结构域编号 domain_id | d2jk6b1 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.3 — FAD/NAD(P)-binding domain |
| 超家族 Superfamily superfamily | c.3.1 — FAD/NAD(P)-binding domain |
| 家族 Family family | c.3.1.5 — FAD/NAD-linked reductases, N-terminal and central domains |
| 结构域编号 domain_id | d2jk6b2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.3 — FAD/NAD(P)-binding domain |
| 超家族 Superfamily superfamily | c.3.1 — FAD/NAD(P)-binding domain |
| 家族 Family family | c.3.1.5 — FAD/NAD-linked reductases, N-terminal and central domains |
| 结构域编号 domain_id | d2jk6b3 |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.87 — CO dehydrogenase flavoprotein C-domain-like |
| 超家族 Superfamily superfamily | d.87.1 — FAD/NAD-linked reductases, dimerisation (C-terminal) domain |
| 家族 Family family | d.87.1.1 — FAD/NAD-linked reductases, dimerisation (C-terminal) domain |
CATH v4.4 (6 domains)
| 结构域编号 domain_id | 2jk6A01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 50 — 3-Layer(bba) Sandwich |
| 拓扑 Topology topology | 50 — FAD/NAD(P)-binding domain |
| 同源超家族 H-superfamily homologous superfamily | 60 — FAD/NAD(P)-binding domain |
| 结构域编号 domain_id | 2jk6A02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 50 — 3-Layer(bba) Sandwich |
| 拓扑 Topology topology | 50 — FAD/NAD(P)-binding domain |
| 同源超家族 H-superfamily homologous superfamily | 60 — FAD/NAD(P)-binding domain |
| 结构域编号 domain_id | 2jk6A03 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 30 — FAD/NAD-linked reductase, C-terminal dimerisation domain |
| 结构域编号 domain_id | 2jk6B01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 50 — 3-Layer(bba) Sandwich |
| 拓扑 Topology topology | 50 — FAD/NAD(P)-binding domain |
| 同源超家族 H-superfamily homologous superfamily | 60 — FAD/NAD(P)-binding domain |
| 结构域编号 domain_id | 2jk6B02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 50 — 3-Layer(bba) Sandwich |
| 拓扑 Topology topology | 50 — FAD/NAD(P)-binding domain |
| 同源超家族 H-superfamily homologous superfamily | 60 — FAD/NAD(P)-binding domain |
| 结构域编号 domain_id | 2jk6B03 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 30 — FAD/NAD-linked reductase, C-terminal dimerisation domain |