2iwh
Structure of yeast Elongation Factor 3 in complex with ADPNP
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 | 2iwh |
| 沉积日期 deposition_date | 2006-06-30 |
| 结构标题 title | Structure of yeast Elongation Factor 3 in complex with ADPNP |
| 关键词 keywords | ;PROTEIN BIOSYNTHESIS, TRANSLATION, PHOSPHORYLATION, ELONGATION FACTOR, NUCLEOTIDE-BINDING, RNA-BINDING, ACETYLATION, ATP-BINDING, RRNA-BINDING ;; TRANSLATION |
| 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 | 38.67 Å |
| 回转半径 Rg (电子) rg_electron | 37.80 Å |
| 零角强度 I(0) i0 | 730026000.00 |
| 分子量 molecular_weight | 218810.0 kDa |
| 排除体积 excluded_volume | 273250 ų |
| 包络体积 envelope_volume | 356380 ų |
| 水化壳体积 shell_volume | 75001 ų |
| 包络直径 envelope_diameter | 126.2 Å |
| 壳层 Rg shell_rg | 46.56 Å |
| 包络 Rg envelope_rg | 37.09 Å |
| 形状 Rg shape_rg | 37.80 Å |
| 总 Rg total_rg | 38.30 Å |
| 总原子数 total_atoms | 15348 |
| 残基数 n_residues | 1954 |
| 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 | 121.8 Å |
| Rg (实空间) rg_real | 38.42 Å |
| Rg 误差 (实空间) rg_real_error | 0.63 Å |
| I(0) (实空间) i0_real | 7.3000e+08 |
| I(0) 误差 (实空间) i0_real_error | 1.2170e+07 |
| Rg (倒空间) rg_reciprocal | 38.58 Å |
| I(0) (倒空间) i0_reciprocal | 730100000.0000 |
| 解质量估计 total_estimate | 0.8870 |
| 解质量评级 solution_quality | GOOD a GOOD solution |
| P(r) 峰数 n_peaks | 1 |
| 主峰位置 r_peak_primary | 50.5 Å |
| 偏度 Skewness skewness | 0.170 |
| 峰度 Kurtosis kurtosis | -0.409 |
| 角度范围 angular_range | — – 0.2050 Å−1 |
| 当前正则化参数 α current_alpha | 0.0001 |
| 最高正则化参数 α highest_alpha | 225700000.0000 |
| 实空间数据点数 n_real_points | 42 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.887; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.972; Smooth: 0.894 |
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) 10 domains
CATH v4.4 (10 domains)
| 结构域编号 domain_id | 2iwhA01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 25 — Alpha Horseshoe |
| 拓扑 Topology topology | 10 — Leucine-rich Repeat Variant |
| 同源超家族 H-superfamily homologous superfamily | 10 — Leucine-rich Repeat Variant |
| 结构域编号 domain_id | 2iwhA02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 1390 — PWI domain |
| 同源超家族 H-superfamily homologous superfamily | 20 — |
| 结构域编号 domain_id | 2iwhA03 |
| 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 | 300 — P-loop containing nucleotide triphosphate hydrolases |
| 结构域编号 domain_id | 2iwhA04 |
| 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 | 300 — P-loop containing nucleotide triphosphate hydrolases |
| 结构域编号 domain_id | 2iwhA05 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 40 — Beta Barrel |
| 拓扑 Topology topology | 50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P) |
| 同源超家族 H-superfamily homologous superfamily | 990 — |
| 结构域编号 domain_id | 2iwhB01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 25 — Alpha Horseshoe |
| 拓扑 Topology topology | 10 — Leucine-rich Repeat Variant |
| 同源超家族 H-superfamily homologous superfamily | 10 — Leucine-rich Repeat Variant |
| 结构域编号 domain_id | 2iwhB02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 1390 — PWI domain |
| 同源超家族 H-superfamily homologous superfamily | 20 — |
| 结构域编号 domain_id | 2iwhB03 |
| 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 | 300 — P-loop containing nucleotide triphosphate hydrolases |
| 结构域编号 domain_id | 2iwhB04 |
| 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 | 300 — P-loop containing nucleotide triphosphate hydrolases |
| 结构域编号 domain_id | 2iwhB05 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 40 — Beta Barrel |
| 拓扑 Topology topology | 50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P) |
| 同源超家族 H-superfamily homologous superfamily | 990 — |