2ahw
Crystal Structure of Acyl-CoA transferase from E. coli O157:H7 (YdiF)-thioester complex with CoA- 2
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 | 2ahw |
| 沉积日期 deposition_date | 2005-07-28 |
| 结构标题 title | Crystal Structure of Acyl-CoA transferase from E. coli O157:H7 (YdiF)-thioester complex with CoA- 2 |
| 关键词 keywords | ;YdiF, CoA transferase, Glutamyl thioester, Structural Genomics, Montreal-Kingston Bacterial Structural Genomics Initiative, BSGI, TRANSFERASE ;; TRANSFERASE |
| 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 | 40.42 Å |
| 回转半径 Rg (电子) rg_electron | 39.95 Å |
| 零角强度 I(0) i0 | 700161000.00 |
| 分子量 molecular_weight | 220670.0 kDa |
| 排除体积 excluded_volume | 277650 ų |
| 包络体积 envelope_volume | 346570 ų |
| 水化壳体积 shell_volume | 69902 ų |
| 包络直径 envelope_diameter | 124.0 Å |
| 壳层 Rg shell_rg | 47.39 Å |
| 包络 Rg envelope_rg | 39.80 Å |
| 形状 Rg shape_rg | 39.97 Å |
| 总 Rg total_rg | 40.24 Å |
| 总原子数 total_atoms | 15514 |
| 残基数 n_residues | 2023 |
| 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 | 121.3 Å |
| Rg (实空间) rg_real | 40.61 Å |
| Rg 误差 (实空间) rg_real_error | 0.27 Å |
| I(0) (实空间) i0_real | 6.8140e+08 |
| I(0) 误差 (实空间) i0_real_error | 8.8220e+06 |
| Rg (倒空间) rg_reciprocal | 40.42 Å |
| I(0) (倒空间) i0_reciprocal | 700300000.0000 |
| 解质量估计 total_estimate | 0.7233 |
| 解质量评级 solution_quality | REASONABLE a REASONABLE solution |
| P(r) 峰数 n_peaks | 1 |
| 主峰位置 r_peak_primary | 49.8 Å |
| 偏度 Skewness skewness | 0.169 |
| 峰度 Kurtosis kurtosis | -0.622 |
| 角度范围 angular_range | — – 0.1950 Å−1 |
| 当前正则化参数 α current_alpha | 2.9640 |
| 最高正则化参数 α highest_alpha | 135100000.0000 |
| 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: 0.984; Stabil: 0.916; Sysdev: 0.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.722 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (3)
6. 折叠分类 (SCOP + CATH) 16 domains
SCOP 2.08 (8 domains)
| 结构域编号 domain_id | d2ahwa1 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.124 — NagB/RpiA/CoA transferase-like |
| 超家族 Superfamily superfamily | c.124.1 — NagB/RpiA/CoA transferase-like |
| 家族 Family family | c.124.1.3 — CoA transferase beta subunit-like |
| 结构域编号 domain_id | d2ahwa2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.124 — NagB/RpiA/CoA transferase-like |
| 超家族 Superfamily superfamily | c.124.1 — NagB/RpiA/CoA transferase-like |
| 家族 Family family | c.124.1.2 — CoA transferase alpha subunit-like |
| 结构域编号 domain_id | d2ahwb1 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.124 — NagB/RpiA/CoA transferase-like |
| 超家族 Superfamily superfamily | c.124.1 — NagB/RpiA/CoA transferase-like |
| 家族 Family family | c.124.1.3 — CoA transferase beta subunit-like |
| 结构域编号 domain_id | d2ahwb2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.124 — NagB/RpiA/CoA transferase-like |
| 超家族 Superfamily superfamily | c.124.1 — NagB/RpiA/CoA transferase-like |
| 家族 Family family | c.124.1.2 — CoA transferase alpha subunit-like |
| 结构域编号 domain_id | d2ahwc1 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.124 — NagB/RpiA/CoA transferase-like |
| 超家族 Superfamily superfamily | c.124.1 — NagB/RpiA/CoA transferase-like |
| 家族 Family family | c.124.1.3 — CoA transferase beta subunit-like |
| 结构域编号 domain_id | d2ahwc2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.124 — NagB/RpiA/CoA transferase-like |
| 超家族 Superfamily superfamily | c.124.1 — NagB/RpiA/CoA transferase-like |
| 家族 Family family | c.124.1.2 — CoA transferase alpha subunit-like |
| 结构域编号 domain_id | d2ahwd1 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.124 — NagB/RpiA/CoA transferase-like |
| 超家族 Superfamily superfamily | c.124.1 — NagB/RpiA/CoA transferase-like |
| 家族 Family family | c.124.1.3 — CoA transferase beta subunit-like |
| 结构域编号 domain_id | d2ahwd2 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.124 — NagB/RpiA/CoA transferase-like |
| 超家族 Superfamily superfamily | c.124.1 — NagB/RpiA/CoA transferase-like |
| 家族 Family family | c.124.1.2 — CoA transferase alpha subunit-like |
CATH v4.4 (8 domains)
| 结构域编号 domain_id | 2ahwA01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 1080 — Glutaconate Coenzyme A-transferase |
| 同源超家族 H-superfamily homologous superfamily | 10 — Glutaconate Coenzyme A-transferase |
| 结构域编号 domain_id | 2ahwA02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 1080 — Glutaconate Coenzyme A-transferase |
| 同源超家族 H-superfamily homologous superfamily | 10 — Glutaconate Coenzyme A-transferase |
| 结构域编号 domain_id | 2ahwB01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 1080 — Glutaconate Coenzyme A-transferase |
| 同源超家族 H-superfamily homologous superfamily | 10 — Glutaconate Coenzyme A-transferase |
| 结构域编号 domain_id | 2ahwB02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 1080 — Glutaconate Coenzyme A-transferase |
| 同源超家族 H-superfamily homologous superfamily | 10 — Glutaconate Coenzyme A-transferase |
| 结构域编号 domain_id | 2ahwC01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 1080 — Glutaconate Coenzyme A-transferase |
| 同源超家族 H-superfamily homologous superfamily | 10 — Glutaconate Coenzyme A-transferase |
| 结构域编号 domain_id | 2ahwC02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 1080 — Glutaconate Coenzyme A-transferase |
| 同源超家族 H-superfamily homologous superfamily | 10 — Glutaconate Coenzyme A-transferase |
| 结构域编号 domain_id | 2ahwD01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 1080 — Glutaconate Coenzyme A-transferase |
| 同源超家族 H-superfamily homologous superfamily | 10 — Glutaconate Coenzyme A-transferase |
| 结构域编号 domain_id | 2ahwD02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 1080 — Glutaconate Coenzyme A-transferase |
| 同源超家族 H-superfamily homologous superfamily | 10 — Glutaconate Coenzyme A-transferase |