1xe0
The structure and function of Xenopus NO38-core, a histone binding chaperone in the nucleolus
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 | 1xe0 |
| 沉积日期 deposition_date | 2004-09-08 |
| 结构标题 title | The structure and function of Xenopus NO38-core, a histone binding chaperone in the nucleolus |
| 关键词 keywords | NO38, Drosophila Nucleoplasmin-Like Protein (dNLP), Nucleoplasmin (Np), histone binding, CHAPERONE; CHAPERONE |
| 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 | 32.27 Å |
| 回转半径 Rg (电子) rg_electron | 31.28 Å |
| 零角强度 I(0) i0 | 186009000.00 |
| 分子量 molecular_weight | 112820.0 kDa |
| 排除体积 excluded_volume | 142940 ų |
| 包络体积 envelope_volume | 176820 ų |
| 水化壳体积 shell_volume | 45660 ų |
| 包络直径 envelope_diameter | 107.2 Å |
| 壳层 Rg shell_rg | 39.35 Å |
| 包络 Rg envelope_rg | 31.82 Å |
| 形状 Rg shape_rg | 31.34 Å |
| 总 Rg total_rg | 31.75 Å |
| 总原子数 total_atoms | 7963 |
| 残基数 n_residues | 1050 |
| 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 | 103.2 Å |
| Rg (实空间) rg_real | 32.26 Å |
| Rg 误差 (实空间) rg_real_error | 0.69 Å |
| I(0) (实空间) i0_real | 1.8600e+08 |
| I(0) 误差 (实空间) i0_real_error | 2.6740e+06 |
| Rg (倒空间) rg_reciprocal | 32.27 Å |
| I(0) (倒空间) i0_reciprocal | 186000000.0000 |
| 解质量估计 total_estimate | 0.8185 |
| 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 | 37.9 Å |
| 偏度 Skewness skewness | 0.358 |
| 峰度 Kurtosis kurtosis | -0.411 |
| 角度范围 angular_range | — – 0.2450 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 103900000.0000 |
| 实空间数据点数 n_real_points | 50 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.880; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; 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) 29 domains
SCOP 2.08 (19 domains)
| 结构域编号 domain_id | d1xe0a1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins) |
| 超家族 Superfamily superfamily | b.121.3 — Nucleoplasmin-like core domain |
| 家族 Family family | b.121.3.1 — Nucleoplasmin-like core domain |
| 结构域编号 domain_id | d1xe0a2 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |
| 结构域编号 domain_id | d1xe0b1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins) |
| 超家族 Superfamily superfamily | b.121.3 — Nucleoplasmin-like core domain |
| 家族 Family family | b.121.3.1 — Nucleoplasmin-like core domain |
| 结构域编号 domain_id | d1xe0b2 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |
| 结构域编号 domain_id | d1xe0c_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins) |
| 超家族 Superfamily superfamily | b.121.3 — Nucleoplasmin-like core domain |
| 家族 Family family | b.121.3.1 — Nucleoplasmin-like core domain |
| 结构域编号 domain_id | d1xe0d1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins) |
| 超家族 Superfamily superfamily | b.121.3 — Nucleoplasmin-like core domain |
| 家族 Family family | b.121.3.1 — Nucleoplasmin-like core domain |
| 结构域编号 domain_id | d1xe0d2 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |
| 结构域编号 domain_id | d1xe0e1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins) |
| 超家族 Superfamily superfamily | b.121.3 — Nucleoplasmin-like core domain |
| 家族 Family family | b.121.3.1 — Nucleoplasmin-like core domain |
| 结构域编号 domain_id | d1xe0e2 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |
| 结构域编号 domain_id | d1xe0f1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins) |
| 超家族 Superfamily superfamily | b.121.3 — Nucleoplasmin-like core domain |
| 家族 Family family | b.121.3.1 — Nucleoplasmin-like core domain |
| 结构域编号 domain_id | d1xe0f2 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |
| 结构域编号 domain_id | d1xe0g1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins) |
| 超家族 Superfamily superfamily | b.121.3 — Nucleoplasmin-like core domain |
| 家族 Family family | b.121.3.1 — Nucleoplasmin-like core domain |
| 结构域编号 domain_id | d1xe0g2 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |
| 结构域编号 domain_id | d1xe0h1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins) |
| 超家族 Superfamily superfamily | b.121.3 — Nucleoplasmin-like core domain |
| 家族 Family family | b.121.3.1 — Nucleoplasmin-like core domain |
| 结构域编号 domain_id | d1xe0h2 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |
| 结构域编号 domain_id | d1xe0i1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins) |
| 超家族 Superfamily superfamily | b.121.3 — Nucleoplasmin-like core domain |
| 家族 Family family | b.121.3.1 — Nucleoplasmin-like core domain |
| 结构域编号 domain_id | d1xe0i2 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |
| 结构域编号 domain_id | d1xe0j1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins) |
| 超家族 Superfamily superfamily | b.121.3 — Nucleoplasmin-like core domain |
| 家族 Family family | b.121.3.1 — Nucleoplasmin-like core domain |
| 结构域编号 domain_id | d1xe0j2 |
| 类 Class class | l — Artifacts |
| 折叠类型 Fold fold | l.1 — Tags |
| 超家族 Superfamily superfamily | l.1.1 — Tags |
| 家族 Family family | l.1.1.1 — Tags |
CATH v4.4 (10 domains)
| 结构域编号 domain_id | 1xe0A00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 340 — Nucleoplasmin core domain |
| 结构域编号 domain_id | 1xe0B00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 340 — Nucleoplasmin core domain |
| 结构域编号 domain_id | 1xe0C00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 340 — Nucleoplasmin core domain |
| 结构域编号 domain_id | 1xe0D00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 340 — Nucleoplasmin core domain |
| 结构域编号 domain_id | 1xe0E00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 340 — Nucleoplasmin core domain |
| 结构域编号 domain_id | 1xe0F00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 340 — Nucleoplasmin core domain |
| 结构域编号 domain_id | 1xe0G00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 340 — Nucleoplasmin core domain |
| 结构域编号 domain_id | 1xe0H00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 340 — Nucleoplasmin core domain |
| 结构域编号 domain_id | 1xe0I00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 340 — Nucleoplasmin core domain |
| 结构域编号 domain_id | 1xe0J00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 120 — Jelly Rolls |
| 同源超家族 H-superfamily homologous superfamily | 340 — Nucleoplasmin core domain |