1j7l
;Crystal Structure of 3',5"-Aminoglycoside Phosphotransferase Type IIIa ADP Complex ;
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 | 1j7l |
| 沉积日期 deposition_date | 2001-05-17 |
| 结构标题 title | ;Crystal Structure of 3',5"-Aminoglycoside Phosphotransferase Type IIIa ADP Complex ; |
| 关键词 keywords | antibiotic resistance, kinase, ATP-binding, 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 | 25.65 Å |
| 回转半径 Rg (电子) rg_electron | 25.08 Å |
| 零角强度 I(0) i0 | 65158000.00 |
| 分子量 molecular_weight | 62587.0 kDa |
| 排除体积 excluded_volume | 78027 ų |
| 包络体积 envelope_volume | 95008 ų |
| 水化壳体积 shell_volume | 31252 ų |
| 包络直径 envelope_diameter | 87.4 Å |
| 壳层 Rg shell_rg | 32.81 Å |
| 包络 Rg envelope_rg | 24.81 Å |
| 形状 Rg shape_rg | 25.10 Å |
| 总 Rg total_rg | 25.83 Å |
| 总原子数 total_atoms | 4398 |
| 残基数 n_residues | 526 |
| 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 | 81.8 Å |
| Rg (实空间) rg_real | 25.57 Å |
| Rg 误差 (实空间) rg_real_error | 0.37 Å |
| I(0) (实空间) i0_real | 6.5160e+07 |
| I(0) 误差 (实空间) i0_real_error | 8.5820e+05 |
| Rg (倒空间) rg_reciprocal | 25.59 Å |
| I(0) (倒空间) i0_reciprocal | 65160000.0000 |
| 解质量估计 total_estimate | 0.9001 |
| 解质量评级 solution_quality | EXCELLENT a EXCELLENT solution |
| P(r) 峰数 n_peaks | 2 |
| 主峰位置 r_peak_primary | 31.6 Å |
| 偏度 Skewness skewness | 0.260 |
| 峰度 Kurtosis kurtosis | -0.382 |
| 角度范围 angular_range | — – 0.3100 Å−1 |
| 当前正则化参数 α current_alpha | 0.0001 |
| 最高正则化参数 α highest_alpha | 25390000.0000 |
| 实空间数据点数 n_real_points | 63 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.904; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.986 |
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) 6 domains
SCOP 2.08 (2 domains)
| 结构域编号 domain_id | d1j7la_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.144 — Protein kinase-like (PK-like) |
| 超家族 Superfamily superfamily | d.144.1 — Protein kinase-like (PK-like) |
| 家族 Family family | d.144.1.6 — APH phosphotransferases |
| 结构域编号 domain_id | d1j7lb_ |
| 类 Class class | d — Alpha and beta proteins (a+b) |
| 折叠类型 Fold fold | d.144 — Protein kinase-like (PK-like) |
| 超家族 Superfamily superfamily | d.144.1 — Protein kinase-like (PK-like) |
| 家族 Family family | d.144.1.6 — APH phosphotransferases |
CATH v4.4 (4 domains)
| 结构域编号 domain_id | 1j7lA01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 200 — Phosphorylase Kinase; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 20 — Phosphorylase Kinase; domain 1 |
| 结构域编号 domain_id | 1j7lA02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 1200 — Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Aminoglycoside phosphotransferase (APH), C-terminal lobe |
| 结构域编号 domain_id | 1j7lB01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 200 — Phosphorylase Kinase; domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 20 — Phosphorylase Kinase; domain 1 |
| 结构域编号 domain_id | 1j7lB02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 1200 — Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Aminoglycoside phosphotransferase (APH), C-terminal lobe |