1kn0
Crystal Structure of the human Rad52 protein
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 | 1kn0 |
| 沉积日期 deposition_date | 2001-12-18 |
| 结构标题 title | Crystal Structure of the human Rad52 protein |
| 关键词 keywords | ;beta-beta-beta-alpha fold, DNA-binding protein, ring protein, RIKEN Structural Genomics/Proteomics Initiative, RSGI, Structural Genomics, DNA BINDING PROTEIN ;; DNA BINDING PROTEIN |
| 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 | 40.54 Å |
| 回转半径 Rg (电子) rg_electron | 40.02 Å |
| 零角强度 I(0) i0 | 798816000.00 |
| 分子量 molecular_weight | 227000.0 kDa |
| 排除体积 excluded_volume | 281880 ų |
| 包络体积 envelope_volume | 381080 ų |
| 水化壳体积 shell_volume | 73712 ų |
| 包络直径 envelope_diameter | 121.1 Å |
| 壳层 Rg shell_rg | 50.50 Å |
| 包络 Rg envelope_rg | 39.37 Å |
| 形状 Rg shape_rg | 39.97 Å |
| 总 Rg total_rg | 40.67 Å |
| 总原子数 total_atoms | 15950 |
| 残基数 n_residues | 2024 |
| 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 | 122.6 Å |
| Rg (实空间) rg_real | 40.32 Å |
| Rg 误差 (实空间) rg_real_error | 0.82 Å |
| I(0) (实空间) i0_real | 7.9880e+08 |
| I(0) 误差 (实空间) i0_real_error | 1.2710e+07 |
| Rg (倒空间) rg_reciprocal | 40.54 Å |
| I(0) (倒空间) i0_reciprocal | 799000000.0000 |
| 解质量估计 total_estimate | 0.8331 |
| 解质量评级 solution_quality | GOOD a GOOD solution |
| P(r) 峰数 n_peaks | 1 |
| 主峰位置 r_peak_primary | 116.3 Å |
| 偏度 Skewness skewness | 0.029 |
| 峰度 Kurtosis kurtosis | -0.666 |
| 角度范围 angular_range | — – 0.1950 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 338800000.0000 |
| 实空间数据点数 n_real_points | 40 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.948; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 0.986; 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) 22 domains
SCOP 2.08 (11 domains)
| 结构域编号 domain_id | d1kn0a_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
| 结构域编号 domain_id | d1kn0b_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
| 结构域编号 domain_id | d1kn0c_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
| 结构域编号 domain_id | d1kn0d_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
| 结构域编号 domain_id | d1kn0e_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
| 结构域编号 domain_id | d1kn0f_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
| 结构域编号 domain_id | d1kn0g_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
| 结构域编号 domain_id | d1kn0h_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
| 结构域编号 domain_id | d1kn0i_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
| 结构域编号 domain_id | d1kn0j_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
| 结构域编号 domain_id | d1kn0k_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.50 — dsRBD-like |
| 超家族 Superfamily superfamily | d.50.1 — dsRNA-binding domain-like |
| 家族 Family family | d.50.1.3 — The homologous-pairing domain of Rad52 recombinase |
CATH v4.4 (11 domains)
| 结构域编号 domain_id | 1kn0A01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |
| 结构域编号 domain_id | 1kn0B01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |
| 结构域编号 domain_id | 1kn0C01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |
| 结构域编号 domain_id | 1kn0D01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |
| 结构域编号 domain_id | 1kn0E01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |
| 结构域编号 domain_id | 1kn0F01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |
| 结构域编号 domain_id | 1kn0G01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |
| 结构域编号 domain_id | 1kn0H01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |
| 结构域编号 domain_id | 1kn0I01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |
| 结构域编号 domain_id | 1kn0J01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |
| 结构域编号 domain_id | 1kn0K01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 390 — Enolase-like; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 80 — DNA repair protein Rad52/59/22 |