2l6o
NMR structure of the protein YP_926445.1 from Shewanella Amazonensis
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 | 2l6o |
| 沉积日期 deposition_date | 2010-11-23 |
| 结构标题 title | NMR structure of the protein YP_926445.1 from Shewanella Amazonensis |
| 关键词 keywords | ;Structural Genomics, PSI-Biology, Protein Structure Initiative, Joint Center for Structural Genomics, JCSG, Structure Genomics, unknown function ;; Structure 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 | 14.43 Å |
| 回转半径 Rg (电子) rg_electron | 13.81 Å |
| 零角强度 I(0) i0 | 967107000.00 |
| 分子量 molecular_weight | 255070.0 kDa |
| 排除体积 excluded_volume | 314970 ų |
| 包络体积 envelope_volume | 29580 ų |
| 水化壳体积 shell_volume | 15544 ų |
| 包络直径 envelope_diameter | 57.9 Å |
| 壳层 Rg shell_rg | 22.17 Å |
| 包络 Rg envelope_rg | 16.33 Å |
| 形状 Rg shape_rg | 13.76 Å |
| 总 Rg total_rg | 14.11 Å |
| 总原子数 total_atoms | 34940 |
| 残基数 n_residues | 2280 |
| 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 | 50.9 Å |
| Rg (实空间) rg_real | 14.35 Å |
| Rg 误差 (实空间) rg_real_error | 0.40 Å |
| I(0) (实空间) i0_real | 9.6710e+08 |
| I(0) 误差 (实空间) i0_real_error | 1.2660e+07 |
| Rg (倒空间) rg_reciprocal | 14.36 Å |
| I(0) (倒空间) i0_reciprocal | 967100000.0000 |
| 解质量估计 total_estimate | 0.8385 |
| 解质量评级 solution_quality | GOOD a GOOD solution |
| P(r) 峰数 n_peaks | 2 |
| 主峰位置 r_peak_primary | 18.7 Å |
| 偏度 Skewness skewness | 0.146 |
| 峰度 Kurtosis kurtosis | -0.211 |
| 角度范围 angular_range | — – 0.5000 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 313900.0000 |
| 实空间数据点数 n_real_points | 80 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.641; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.978 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (1)
6. 折叠分类 (SCOP + CATH) 2 domains
CATH v4.4 (2 domains)
| 结构域编号 domain_id | 2l6oA01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 40 — Beta Barrel |
| 拓扑 Topology topology | 10 — Thrombin, subunit H |
| 同源超家族 H-superfamily homologous superfamily | 320 — Uncharacterised protein PF13642 yp_926445, N-terminal domain |
| 结构域编号 domain_id | 2l6oA02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 8 — Helicase, Ruva Protein; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 650 — Uncharacterised protein PF13642 yp_926445, C-terminal domain |