2ja2
Mycobacterium tuberculosis glutamyl-tRNA synthetase
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 | 2ja2 |
| 沉积日期 deposition_date | 2006-11-20 |
| 结构标题 title | Mycobacterium tuberculosis glutamyl-tRNA synthetase |
| 关键词 keywords | ;NON-DISCRIMINATING GLUTAMYL-TRNA AMINOACYLATION, PROTEIN BIOSYNTHESIS, AMINOACYL-TRNA SYNTHETASE, LIGASE, ATP-BINDING, NUCLEOTIDE-BINDING ;; LIGASE |
| 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 | 31.44 Å |
| 回转半径 Rg (电子) rg_electron | 31.69 Å |
| 零角强度 I(0) i0 | 46848500.00 |
| 分子量 molecular_weight | 53448.0 kDa |
| 排除体积 excluded_volume | 66781 ų |
| 包络体积 envelope_volume | 88225 ų |
| 水化壳体积 shell_volume | 26362 ų |
| 包络直径 envelope_diameter | 116.2 Å |
| 壳层 Rg shell_rg | 34.35 Å |
| 包络 Rg envelope_rg | 32.02 Å |
| 形状 Rg shape_rg | 31.66 Å |
| 总 Rg total_rg | 32.04 Å |
| 总原子数 total_atoms | 3776 |
| 残基数 n_residues | 485 |
| 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 | 109.3 Å |
| Rg (实空间) rg_real | 32.01 Å |
| Rg 误差 (实空间) rg_real_error | 1.16 Å |
| I(0) (实空间) i0_real | 4.6850e+07 |
| I(0) 误差 (实空间) i0_real_error | 7.5940e+05 |
| Rg (倒空间) rg_reciprocal | 31.77 Å |
| I(0) (倒空间) i0_reciprocal | 46840000.0000 |
| 解质量估计 total_estimate | 0.7689 |
| 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 | 26.2 Å |
| 偏度 Skewness skewness | 0.670 |
| 峰度 Kurtosis kurtosis | -0.208 |
| 角度范围 angular_range | — – 0.2500 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 6657000.0000 |
| 实空间数据点数 n_real_points | 51 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.608; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.565; Smooth: 0.602 |
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) 5 domains
CATH v4.4 (5 domains)
| 结构域编号 domain_id | 2ja2A01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 50 — Rossmann fold |
| 同源超家族 H-superfamily homologous superfamily | 620 — HUPs |
| 结构域编号 domain_id | 2ja2A02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 800 — Glutamyl-tRNA Synthetase; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Glutamyl-tRNA Synthetase; Domain 3 |
| 结构域编号 domain_id | 2ja2A03 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 1160 — Glutamyl-tRNA Synthetase; domain 2 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Glutamyl-trna Synthetase; Domain 2 |
| 结构域编号 domain_id | 2ja2A04 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 8 — Helicase, Ruva Protein; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 70 — Glutamate-tRNA synthetase, class I, anticodon-binding domain 1 |
| 结构域编号 domain_id | 2ja2A05 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 10 — Arc Repressor Mutant, subunit A |
| 同源超家族 H-superfamily homologous superfamily | 350 — |