1wpb
Structure of Escherichia coli yfbU gene product
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 | 1wpb |
| 沉积日期 deposition_date | 2004-09-01 |
| 结构标题 title | Structure of Escherichia coli yfbU gene product |
| 关键词 keywords | ;structural genomics, MCSG, NCS, regulatory protein, protein structure initiative, PSI, Midwest Center for Structural Genomics, UNKNOWN FUNCTION ;; STRUCTURAL GENOMICS, UNKNOWN FUNCTION |
| 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 | — Å |
| 回转半径 Rg (电子) rg_electron | 111.80 Å |
| 零角强度 I(0) i0 | 1606400000.00 |
| 分子量 molecular_weight | 324570.0 kDa |
| 排除体积 excluded_volume | 398700 ų |
| 包络体积 envelope_volume | 1185600 ų |
| 水化壳体积 shell_volume | 90671 ų |
| 包络直径 envelope_diameter | 331.0 Å |
| 壳层 Rg shell_rg | 113.20 Å |
| 包络 Rg envelope_rg | 99.31 Å |
| 形状 Rg shape_rg | 111.80 Å |
| 总 Rg total_rg | 111.70 Å |
| 总原子数 total_atoms | 22675 |
| 残基数 n_residues | 2687 |
| 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 | 223.3 Å |
| Rg (实空间) rg_real | 79.00 Å |
| Rg 误差 (实空间) rg_real_error | 0.84 Å |
| I(0) (实空间) i0_real | 1.1880e+09 |
| I(0) 误差 (实空间) i0_real_error | 2.3270e+07 |
| Rg (倒空间) rg_reciprocal | 97.19 Å |
| I(0) (倒空间) i0_reciprocal | 1533000000.0000 |
| 解质量估计 total_estimate | 0.7383 |
| 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 | 63.8 Å |
| 偏度 Skewness skewness | 0.563 |
| 峰度 Kurtosis kurtosis | -0.721 |
| 角度范围 angular_range | — – 0.0700 Å−1 |
| 当前正则化参数 α current_alpha | 3.3980 |
| 最高正则化参数 α highest_alpha | 16650000000.0000 |
| 实空间数据点数 n_real_points | 15 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.034; Oscil: 0.657; Stabil: 0.884; Sysdev: 1.000; Positv: 1.000; Valcen: 0.972; Smooth: 0.003 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (4)
6. 折叠分类 (SCOP + CATH) 48 domains
SCOP 2.08 (16 domains)
| 结构域编号 domain_id | d1wpba_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbb_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbc_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbd_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbe_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbf_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbg_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbh_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbi_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbj_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbk_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbl_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbm_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbn_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbo_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
| 结构域编号 domain_id | d1wpbp_ |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.233 — YfbU-like |
| 超家族 Superfamily superfamily | a.233.1 — YfbU-like |
| 家族 Family family | a.233.1.1 — YfbU-like |
CATH v4.4 (32 domains)
| 结构域编号 domain_id | 1wpbA01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbA02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbB01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbB02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbC01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbC02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbD01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbD02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbE01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbE02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbF01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbF02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbG01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbG02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbH01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbH02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbI01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbI02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbJ01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbJ02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbK01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbK02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbL01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbL02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbM01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbM02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbN01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbN02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbO01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbO02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |
| 结构域编号 domain_id | 1wpbP01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 680 — Helix hairpin bin |
| 结构域编号 domain_id | 1wpbP02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 3190 — yfbu gene product, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — yfbu gene product, domain 2 |