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Fitting of the gp9 structure in the EM density of bacteriophage T4 extended tail
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 | 1zku |
| 沉积日期 deposition_date | 2005-05-04 |
| 结构标题 title | Fitting of the gp9 structure in the EM density of bacteriophage T4 extended tail |
| 关键词 keywords | Structural protein, Viral protein; VIRAL PROTEIN |
| 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 | — Å |
| 回转半径 Rg (电子) rg_electron | 157.90 Å |
| 零角强度 I(0) i0 | 4463500000.00 |
| 分子量 molecular_weight | 562070.0 kDa |
| 排除体积 excluded_volume | 699290 ų |
| 包络体积 envelope_volume | 2001600 ų |
| 水化壳体积 shell_volume | 106560 ų |
| 包络直径 envelope_diameter | 371.5 Å |
| 壳层 Rg shell_rg | 173.70 Å |
| 包络 Rg envelope_rg | 133.90 Å |
| 形状 Rg shape_rg | 157.90 Å |
| 总 Rg total_rg | 157.90 Å |
| 总原子数 total_atoms | 39420 |
| 残基数 n_residues | 5184 |
| 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 | 676.8 Å |
| Rg (实空间) rg_real | 148.20 Å |
| Rg 误差 (实空间) rg_real_error | 16.05 Å |
| I(0) (实空间) i0_real | 4.4270e+09 |
| I(0) 误差 (实空间) i0_real_error | 1.4770e+08 |
| Rg (倒空间) rg_reciprocal | 132.20 Å |
| I(0) (倒空间) i0_reciprocal | 3797000000.0000 |
| 解质量估计 total_estimate | 0.6421 |
| 解质量评级 solution_quality | REASONABLE a REASONABLE solution |
| P(r) 峰数 n_peaks | 4 |
| 主峰位置 r_peak_primary | 203.0 Å |
| 偏度 Skewness skewness | -5.423 |
| 峰度 Kurtosis kurtosis | -31.455 |
| 角度范围 angular_range | — – 0.0500 Å−1 |
| 当前正则化参数 α current_alpha | 0.0989 |
| 最高正则化参数 α highest_alpha | 185400000.0000 |
| 实空间数据点数 n_real_points | 11 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 13.350; Oscil: 0.000; Stabil: 0.829; Sysdev: 1.000; Positv: 0.992; Valcen: 0.908; Smooth: 0.000 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (2)
6. 折叠分类 (SCOP + CATH) 18 domains
SCOP 2.08 (18 domains)
| 结构域编号 domain_id | d1zkua1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkub1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkuc1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkud1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkue1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkuf1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkug1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkuh1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkui1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkuj1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkuk1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkul1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkum1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkun1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkuo1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkup1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkuq1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |
| 结构域编号 domain_id | d1zkur1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.32 — gp9 |
| 超家族 Superfamily superfamily | b.32.1 — gp9 |
| 家族 Family family | b.32.1.1 — gp9 |