1pn8
;Coordinates of S12, L11 proteins and E-site tRNA from 70S crystal structure separately fitted into the Cryo-EM map of E.coli 70S.EF-G.GDPNP complex. The atomic coordinates originally from the E-site tRNA were fitted in the position of the hybrid P/E-site tRNA. ;
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 | 1pn8 |
| 沉积日期 deposition_date | 2003-06-12 |
| 结构标题 title | ;Coordinates of S12, L11 proteins and E-site tRNA from 70S crystal structure separately fitted into the Cryo-EM map of E.coli 70S.EF-G.GDPNP complex. The atomic coordinates originally from the E-site tRNA were fitted in the position of the hybrid P/E-site tRNA. ; |
| 关键词 keywords | ribosomal protein, tRNA binding protein, tRNA, RNA binding protein-RNA COMPLEX; RNA binding protein/RNA |
| 实验方法 method | ELECTRON MICROSCOPY |
2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)
| 回转半径 Rg (Guinier) rg_guinier | 56.53 Å |
| 回转半径 Rg (电子) rg_electron | 51.32 Å |
| 零角强度 I(0) i0 | 17455100.00 |
| 分子量 molecular_weight | 30150.0 kDa |
| 排除体积 excluded_volume | 35272 ų |
| 包络体积 envelope_volume | 79401 ų |
| 水化壳体积 shell_volume | 12327 ų |
| 包络直径 envelope_diameter | 155.0 Å |
| 壳层 Rg shell_rg | 55.86 Å |
| 包络 Rg envelope_rg | 53.76 Å |
| 形状 Rg shape_rg | 56.31 Å |
| 总 Rg total_rg | 51.34 Å |
| 总原子数 total_atoms | 68 |
| 残基数 n_residues | 68 |
| 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 | 192.1 Å |
| Rg (实空间) rg_real | 56.76 Å |
| Rg 误差 (实空间) rg_real_error | 2.77 Å |
| I(0) (实空间) i0_real | 1.7450e+07 |
| I(0) 误差 (实空间) i0_real_error | 3.7540e+05 |
| Rg (倒空间) rg_reciprocal | 56.26 Å |
| I(0) (倒空间) i0_reciprocal | 17440000.0000 |
| 解质量估计 total_estimate | 0.5601 |
| 解质量评级 solution_quality | REASONABLE a REASONABLE solution |
| P(r) 峰数 n_peaks | 3 |
| 主峰位置 r_peak_primary | 82.3 Å |
| 偏度 Skewness skewness | -0.057 |
| 峰度 Kurtosis kurtosis | -1.126 |
| 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 | 1101000.0000 |
| 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: 0.000; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.277; Smooth: 0.000 |
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) 2 domains
SCOP 2.08 (2 domains)
| 结构域编号 domain_id | d1pn8l_ |
| 类 Class class | i — Low resolution protein structures |
| 折叠类型 Fold fold | i.1 — Ribosome and ribosomal fragments |
| 超家族 Superfamily superfamily | i.1.1 — Ribosome and ribosomal fragments |
| 家族 Family family | i.1.1.1 — Ribosome complexes |
| 结构域编号 domain_id | d1pn8o_ |
| 类 Class class | i — Low resolution protein structures |
| 折叠类型 Fold fold | i.1 — Ribosome and ribosomal fragments |
| 超家族 Superfamily superfamily | i.1.1 — Ribosome and ribosomal fragments |
| 家族 Family family | i.1.1.1 — Ribosome complexes |