1ze3
Crystal Structure of the Ternary Complex of FIMD (N-Terminal Domain) with FIMC and the Pilin Domain of FIMH
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 | 1ze3 |
| 沉积日期 deposition_date | 2005-04-17 |
| 结构标题 title | Crystal Structure of the Ternary Complex of FIMD (N-Terminal Domain) with FIMC and the Pilin Domain of FIMH |
| 关键词 keywords | Usher, soluble domain, ternary complex with chaperone and pilus subunit, CHAPERONE-STRUCTURAL-MEMBRANE PROTEIN COMPLEX; CHAPERONE/STRUCTURAL/MEMBRANE 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 | 26.92 Å |
| 回转半径 Rg (电子) rg_electron | 25.92 Å |
| 零角强度 I(0) i0 | 39918000.00 |
| 分子量 molecular_weight | 48528.0 kDa |
| 排除体积 excluded_volume | 60683 ų |
| 包络体积 envelope_volume | 75538 ų |
| 水化壳体积 shell_volume | 25519 ų |
| 包络直径 envelope_diameter | 92.6 Å |
| 壳层 Rg shell_rg | 31.70 Å |
| 包络 Rg envelope_rg | 26.40 Å |
| 形状 Rg shape_rg | 25.88 Å |
| 总 Rg total_rg | 26.70 Å |
| 总原子数 total_atoms | 3404 |
| 残基数 n_residues | 443 |
| 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 | 89.4 Å |
| Rg (实空间) rg_real | 26.97 Å |
| Rg 误差 (实空间) rg_real_error | 0.73 Å |
| I(0) (实空间) i0_real | 3.9920e+07 |
| I(0) 误差 (实空间) i0_real_error | 5.7620e+05 |
| Rg (倒空间) rg_reciprocal | 26.96 Å |
| I(0) (倒空间) i0_reciprocal | 39920000.0000 |
| 解质量估计 total_estimate | 0.6742 |
| 解质量评级 solution_quality | REASONABLE a REASONABLE solution |
| P(r) 峰数 n_peaks | 2 |
| 主峰位置 r_peak_primary | 28.8 Å |
| 偏度 Skewness skewness | 0.364 |
| 峰度 Kurtosis kurtosis | -0.371 |
| 角度范围 angular_range | — – 0.2950 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 7518000.0000 |
| 实空间数据点数 n_real_points | 60 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.895; Stabil: 1.000; Sysdev: 0.089; Positv: 1.000; Valcen: 0.912; Smooth: 0.894 |
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) 8 domains
SCOP 2.08 (4 domains)
| 结构域编号 domain_id | d1ze3c1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.1 — Immunoglobulin-like beta-sandwich |
| 超家族 Superfamily superfamily | b.1.11 — PapD-like |
| 家族 Family family | b.1.11.1 — Pilus chaperone |
| 结构域编号 domain_id | d1ze3c2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.7 — C2 domain-like |
| 超家族 Superfamily superfamily | b.7.2 — Periplasmic chaperone C-domain |
| 家族 Family family | b.7.2.1 — Periplasmic chaperone C-domain |
| 结构域编号 domain_id | d1ze3d1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.167 — FimD N-terminal domain-like |
| 超家族 Superfamily superfamily | b.167.1 — FimD N-terminal domain-like |
| 家族 Family family | b.167.1.1 — Usher N-domain |
| 结构域编号 domain_id | d1ze3h_ |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.2 — Common fold of diphtheria toxin/transcription factors/cytochrome f |
| 超家族 Superfamily superfamily | b.2.3 — Bacterial adhesins |
| 家族 Family family | b.2.3.2 — Pilus subunits |
CATH v4.4 (4 domains)
| 结构域编号 domain_id | 1ze3C01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Immunoglobulins |
| 结构域编号 domain_id | 1ze3C02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Immunoglobulins |
| 结构域编号 domain_id | 1ze3D00 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 10 — Roll |
| 拓扑 Topology topology | 20 — Ubiquitin-like (UB roll) |
| 同源超家族 H-superfamily homologous superfamily | 410 — PapC, N-terminal domain |
| 结构域编号 domain_id | 1ze3H00 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 1090 — Fimbrial-type adhesion domain |