1g1x
STRUCTURE OF RIBOSOMAL PROTEINS S15, S6, S18, AND 16S RIBOSOMAL RNA
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 | 1g1x |
| 沉积日期 deposition_date | 2000-10-13 |
| 结构标题 title | STRUCTURE OF RIBOSOMAL PROTEINS S15, S6, S18, AND 16S RIBOSOMAL RNA |
| 关键词 keywords | ribosomal proteins S15, S6, S18, S30 ribosomal subunit, RNA, ribosome; RIBOSOME |
| 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 | 34.56 Å |
| 回转半径 Rg (电子) rg_electron | 33.26 Å |
| 零角强度 I(0) i0 | 351489000.00 |
| 分子量 molecular_weight | 110460.0 kDa |
| 排除体积 excluded_volume | 121080 ų |
| 包络体积 envelope_volume | 173710 ų |
| 水化壳体积 shell_volume | 43143 ų |
| 包络直径 envelope_diameter | 118.5 Å |
| 壳层 Rg shell_rg | 40.25 Å |
| 包络 Rg envelope_rg | 32.69 Å |
| 形状 Rg shape_rg | 33.22 Å |
| 总 Rg total_rg | 33.75 Å |
| 总原子数 total_atoms | 7543 |
| 残基数 n_residues | 635 |
| 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 | 111.5 Å |
| Rg (实空间) rg_real | 34.51 Å |
| Rg 误差 (实空间) rg_real_error | 0.97 Å |
| I(0) (实空间) i0_real | 3.5150e+08 |
| I(0) 误差 (实空间) i0_real_error | 5.6540e+06 |
| Rg (倒空间) rg_reciprocal | 34.54 Å |
| I(0) (倒空间) i0_reciprocal | 351500000.0000 |
| 解质量估计 total_estimate | 0.8894 |
| 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 | 48.5 Å |
| 偏度 Skewness skewness | 0.224 |
| 峰度 Kurtosis kurtosis | -0.443 |
| 角度范围 angular_range | — – 0.2300 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 34280000.0000 |
| 实空间数据点数 n_real_points | 47 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.908; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.834 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (5)
6. 折叠分类 (SCOP + CATH) 12 domains
SCOP 2.08 (6 domains)
| 结构域编号 domain_id | d1g1xa_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.58 — Ferredoxin-like |
| 超家族 Superfamily superfamily | d.58.14 — Ribosomal protein S6 |
| 家族 Family family | d.58.14.1 — Ribosomal protein S6 |
| 结构域编号 domain_id | d1g1xb_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.16 — S15/NS1 RNA-binding domain |
| 超家族 Superfamily superfamily | a.16.1 — S15/NS1 RNA-binding domain |
| 家族 Family family | a.16.1.2 — Ribosomal protein S15 |
| 结构域编号 domain_id | d1g1xc_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.4 — DNA/RNA-binding 3-helical bundle |
| 超家族 Superfamily superfamily | a.4.8 — Ribosomal protein S18 |
| 家族 Family family | a.4.8.1 — Ribosomal protein S18 |
| 结构域编号 domain_id | d1g1xf_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.58 — Ferredoxin-like |
| 超家族 Superfamily superfamily | d.58.14 — Ribosomal protein S6 |
| 家族 Family family | d.58.14.1 — Ribosomal protein S6 |
| 结构域编号 domain_id | d1g1xg_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.16 — S15/NS1 RNA-binding domain |
| 超家族 Superfamily superfamily | a.16.1 — S15/NS1 RNA-binding domain |
| 家族 Family family | a.16.1.2 — Ribosomal protein S15 |
| 结构域编号 domain_id | d1g1xh_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.4 — DNA/RNA-binding 3-helical bundle |
| 超家族 Superfamily superfamily | a.4.8 — Ribosomal protein S18 |
| 家族 Family family | a.4.8.1 — Ribosomal protein S18 |
CATH v4.4 (6 domains)
| 结构域编号 domain_id | 1g1xA00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 70 — Alpha-Beta Plaits |
| 同源超家族 H-superfamily homologous superfamily | 60 — Ribosomal protein S6/Translation elongation factor EF1B |
| 结构域编号 domain_id | 1g1xB00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 10 — S15/NS1, RNA-binding |
| 结构域编号 domain_id | 1g1xC00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 640 — 30s Ribosomal Protein S18 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Ribosomal protein S18 |
| 结构域编号 domain_id | 1g1xF00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 70 — Alpha-Beta Plaits |
| 同源超家族 H-superfamily homologous superfamily | 60 — Ribosomal protein S6/Translation elongation factor EF1B |
| 结构域编号 domain_id | 1g1xG00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 10 — S15/NS1, RNA-binding |
| 结构域编号 domain_id | 1g1xH00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 640 — 30s Ribosomal Protein S18 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Ribosomal protein S18 |