1n9r
Crystal structure of a heptameric ring complex of yeast SmF in spacegroup P4122
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 | 1n9r |
| 沉积日期 deposition_date | 2002-11-26 |
| 结构标题 title | Crystal structure of a heptameric ring complex of yeast SmF in spacegroup P4122 |
| 关键词 keywords | snrnp, Sm protein, heptamer, TRANSLATION; TRANSLATION |
| 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 | 25.59 Å |
| 回转半径 Rg (电子) rg_electron | 24.20 Å |
| 零角强度 I(0) i0 | 47511200.00 |
| 分子量 molecular_weight | 54284.0 kDa |
| 排除体积 excluded_volume | 68243 ų |
| 包络体积 envelope_volume | 83053 ų |
| 水化壳体积 shell_volume | 27948 ų |
| 包络直径 envelope_diameter | 75.5 Å |
| 壳层 Rg shell_rg | 31.72 Å |
| 包络 Rg envelope_rg | 23.90 Å |
| 形状 Rg shape_rg | 24.21 Å |
| 总 Rg total_rg | 25.02 Å |
| 总原子数 total_atoms | 3837 |
| 残基数 n_residues | 478 |
| 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 | 76.2 Å |
| Rg (实空间) rg_real | 25.46 Å |
| Rg 误差 (实空间) rg_real_error | 0.45 Å |
| I(0) (实空间) i0_real | 4.7510e+07 |
| I(0) 误差 (实空间) i0_real_error | 6.9290e+05 |
| Rg (倒空间) rg_reciprocal | 25.50 Å |
| I(0) (倒空间) i0_reciprocal | 47510000.0000 |
| 解质量估计 total_estimate | 0.8978 |
| 解质量评级 solution_quality | GOOD a GOOD solution |
| P(r) 峰数 n_peaks | 3 |
| 主峰位置 r_peak_primary | 25.8 Å |
| 偏度 Skewness skewness | 0.096 |
| 峰度 Kurtosis kurtosis | -0.700 |
| 角度范围 angular_range | — – 0.3100 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 47050000.0000 |
| 实空间数据点数 n_real_points | 63 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.964; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.998; Smooth: 0.779 |
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) 14 domains
SCOP 2.08 (7 domains)
| 结构域编号 domain_id | d1n9ra_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.38 — Sm-like fold |
| 超家族 Superfamily superfamily | b.38.1 — Sm-like ribonucleoproteins |
| 家族 Family family | b.38.1.1 — Sm motif of small nuclear ribonucleoproteins, SNRNP |
| 结构域编号 domain_id | d1n9rb_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.38 — Sm-like fold |
| 超家族 Superfamily superfamily | b.38.1 — Sm-like ribonucleoproteins |
| 家族 Family family | b.38.1.1 — Sm motif of small nuclear ribonucleoproteins, SNRNP |
| 结构域编号 domain_id | d1n9rc_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.38 — Sm-like fold |
| 超家族 Superfamily superfamily | b.38.1 — Sm-like ribonucleoproteins |
| 家族 Family family | b.38.1.1 — Sm motif of small nuclear ribonucleoproteins, SNRNP |
| 结构域编号 domain_id | d1n9rd_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.38 — Sm-like fold |
| 超家族 Superfamily superfamily | b.38.1 — Sm-like ribonucleoproteins |
| 家族 Family family | b.38.1.1 — Sm motif of small nuclear ribonucleoproteins, SNRNP |
| 结构域编号 domain_id | d1n9re_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.38 — Sm-like fold |
| 超家族 Superfamily superfamily | b.38.1 — Sm-like ribonucleoproteins |
| 家族 Family family | b.38.1.1 — Sm motif of small nuclear ribonucleoproteins, SNRNP |
| 结构域编号 domain_id | d1n9rf_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.38 — Sm-like fold |
| 超家族 Superfamily superfamily | b.38.1 — Sm-like ribonucleoproteins |
| 家族 Family family | b.38.1.1 — Sm motif of small nuclear ribonucleoproteins, SNRNP |
| 结构域编号 domain_id | d1n9rg_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.38 — Sm-like fold |
| 超家族 Superfamily superfamily | b.38.1 — Sm-like ribonucleoproteins |
| 家族 Family family | b.38.1.1 — Sm motif of small nuclear ribonucleoproteins, SNRNP |
CATH v4.4 (7 domains)
| 结构域编号 domain_id | 1n9rA00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 30 — SH3 type barrels. |
| 同源超家族 H-superfamily homologous superfamily | 100 — |
| 结构域编号 domain_id | 1n9rB00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 30 — SH3 type barrels. |
| 同源超家族 H-superfamily homologous superfamily | 100 — |
| 结构域编号 domain_id | 1n9rC00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 30 — SH3 type barrels. |
| 同源超家族 H-superfamily homologous superfamily | 100 — |
| 结构域编号 domain_id | 1n9rD00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 30 — SH3 type barrels. |
| 同源超家族 H-superfamily homologous superfamily | 100 — |
| 结构域编号 domain_id | 1n9rE00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 30 — SH3 type barrels. |
| 同源超家族 H-superfamily homologous superfamily | 100 — |
| 结构域编号 domain_id | 1n9rF00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 30 — SH3 type barrels. |
| 同源超家族 H-superfamily homologous superfamily | 100 — |
| 结构域编号 domain_id | 1n9rG00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 30 — SH3 type barrels. |
| 同源超家族 H-superfamily homologous superfamily | 100 — |