2j9w
Structural insight into the ESCRT-I-II link and its role in MVB trafficking
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 | 2j9w |
| 沉积日期 deposition_date | 2006-11-16 |
| 结构标题 title | Structural insight into the ESCRT-I-II link and its role in MVB trafficking |
| 关键词 keywords | NZF FINGER, HIV BUDDING, PROTEIN TRANSPORT; PROTEIN TRANSPORT |
| 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 | 19.29 Å |
| 回转半径 Rg (电子) rg_electron | 17.98 Å |
| 零角强度 I(0) i0 | 10722800.00 |
| 分子量 molecular_weight | 23477.0 kDa |
| 排除体积 excluded_volume | 29002 ų |
| 包络体积 envelope_volume | 33902 ų |
| 水化壳体积 shell_volume | 16010 ų |
| 包络直径 envelope_diameter | 58.9 Å |
| 壳层 Rg shell_rg | 23.63 Å |
| 包络 Rg envelope_rg | 18.10 Å |
| 形状 Rg shape_rg | 17.98 Å |
| 总 Rg total_rg | 18.82 Å |
| 总原子数 total_atoms | 1638 |
| 残基数 n_residues | 200 |
| 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 | 59.2 Å |
| Rg (实空间) rg_real | 19.21 Å |
| Rg 误差 (实空间) rg_real_error | 0.35 Å |
| I(0) (实空间) i0_real | 1.0720e+07 |
| I(0) 误差 (实空间) i0_real_error | 1.3890e+05 |
| Rg (倒空间) rg_reciprocal | 19.22 Å |
| I(0) (倒空间) i0_reciprocal | 10720000.0000 |
| 解质量估计 total_estimate | 0.7605 |
| 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 | 20.0 Å |
| 偏度 Skewness skewness | 0.167 |
| 峰度 Kurtosis kurtosis | -0.609 |
| 角度范围 angular_range | — – 0.4100 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 3432000.0000 |
| 实空间数据点数 n_real_points | 72 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.943; Stabil: 1.000; Sysdev: 0.356; Positv: 1.000; Valcen: 1.000; Smooth: 0.984 |
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) 6 domains
SCOP 2.08 (4 domains)
| 结构域编号 domain_id | d2j9wa1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.24 — Four-helical up-and-down bundle |
| 超家族 Superfamily superfamily | a.24.28 — VPS28 C-terminal domain-like |
| 家族 Family family | a.24.28.0 — automated matches |
| 结构域编号 domain_id | d2j9wa2 |
| 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 | d2j9wb1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.24 — Four-helical up-and-down bundle |
| 超家族 Superfamily superfamily | a.24.28 — VPS28 C-terminal domain-like |
| 家族 Family family | a.24.28.0 — automated matches |
| 结构域编号 domain_id | d2j9wb2 |
| 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 (2 domains)
| 结构域编号 domain_id | 2j9wA00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 120 — Four Helix Bundle (Hemerythrin (Met), subunit A) |
| 同源超家族 H-superfamily homologous superfamily | 1130 — Vps28 C-terminal domain |
| 结构域编号 domain_id | 2j9wB00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 120 — Four Helix Bundle (Hemerythrin (Met), subunit A) |
| 同源超家族 H-superfamily homologous superfamily | 1130 — Vps28 C-terminal domain |