2fnq
;Insights from the X-ray crystal structure of coral 8R-lipoxygenase: calcium activation via A C2-like domain and a structural basis of product chirality ;
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 | 2fnq |
| 沉积日期 deposition_date | 2006-01-11 |
| 结构标题 title | ;Insights from the X-ray crystal structure of coral 8R-lipoxygenase: calcium activation via A C2-like domain and a structural basis of product chirality ; |
| 关键词 keywords | beta-barrel, eicosanoid, fatty acid, c2-like domain, OXIDOREDUCTASE; 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 | 56.94 Å |
| 回转半径 Rg (电子) rg_electron | 57.61 Å |
| 零角强度 I(0) i0 | 306432000.00 |
| 分子量 molecular_weight | 147400.0 kDa |
| 排除体积 excluded_volume | 184120 ų |
| 包络体积 envelope_volume | 263700 ų |
| 水化壳体积 shell_volume | 39237 ų |
| 包络直径 envelope_diameter | 186.8 Å |
| 壳层 Rg shell_rg | 58.24 Å |
| 包络 Rg envelope_rg | 55.34 Å |
| 形状 Rg shape_rg | 57.60 Å |
| 总 Rg total_rg | 57.67 Å |
| 总原子数 total_atoms | 10434 |
| 残基数 n_residues | 1338 |
| 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 | 176.6 Å |
| Rg (实空间) rg_real | 57.66 Å |
| Rg 误差 (实空间) rg_real_error | 1.79 Å |
| I(0) (实空间) i0_real | 3.0640e+08 |
| I(0) 误差 (实空间) i0_real_error | 5.9350e+06 |
| Rg (倒空间) rg_reciprocal | 56.27 Å |
| I(0) (倒空间) i0_reciprocal | 305800000.0000 |
| 解质量估计 total_estimate | 0.5789 |
| 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 | 31.5 Å |
| 偏度 Skewness skewness | 0.325 |
| 峰度 Kurtosis kurtosis | -1.093 |
| 角度范围 angular_range | — – 0.1400 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 11330000.0000 |
| 实空间数据点数 n_real_points | 29 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.128; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.134; Smooth: 0.004 |
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) 6 domains
CATH v4.4 (6 domains)
| 结构域编号 domain_id | 2fnqA01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 60 — Lipoxygenase-1 |
| 同源超家族 H-superfamily homologous superfamily | 20 — PLAT/LH2 domain |
| 结构域编号 domain_id | 2fnqA02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 245 — Lipoxygenase-1; domain 5 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Lipoxygenase-1; Domain 5 |
| 结构域编号 domain_id | 2fnqA03 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 10 — Roll |
| 拓扑 Topology topology | 450 — Nuclear Transport Factor 2; Chain: A, |
| 同源超家族 H-superfamily homologous superfamily | 60 — |
| 结构域编号 domain_id | 2fnqB01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 60 — Lipoxygenase-1 |
| 同源超家族 H-superfamily homologous superfamily | 20 — PLAT/LH2 domain |
| 结构域编号 domain_id | 2fnqB02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 245 — Lipoxygenase-1; domain 5 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Lipoxygenase-1; Domain 5 |
| 结构域编号 domain_id | 2fnqB03 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 10 — Roll |
| 拓扑 Topology topology | 450 — Nuclear Transport Factor 2; Chain: A, |
| 同源超家族 H-superfamily homologous superfamily | 60 — |