1k1w
Crystal structure of 4-alpha-glucanotransferase from thermococcus litoralis
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 | 1k1w |
| 沉积日期 deposition_date | 2001-09-26 |
| 结构标题 title | Crystal structure of 4-alpha-glucanotransferase from thermococcus litoralis |
| 关键词 keywords | 4-ALPHA-GLUCANOTRANSFERASE, SELENO-METHIONINE, 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 | 27.66 Å |
| 回转半径 Rg (电子) rg_electron | 27.18 Å |
| 零角强度 I(0) i0 | 84177100.00 |
| 分子量 molecular_weight | 75283.0 kDa |
| 排除体积 excluded_volume | 95159 ų |
| 包络体积 envelope_volume | 109540 ų |
| 水化壳体积 shell_volume | 33662 ų |
| 包络直径 envelope_diameter | 94.4 Å |
| 壳层 Rg shell_rg | 34.49 Å |
| 包络 Rg envelope_rg | 27.29 Å |
| 形状 Rg shape_rg | 27.17 Å |
| 总 Rg total_rg | 27.95 Å |
| 总原子数 total_atoms | 5292 |
| 残基数 n_residues | 615 |
| 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 | 91.4 Å |
| Rg (实空间) rg_real | 27.70 Å |
| Rg 误差 (实空间) rg_real_error | 0.47 Å |
| I(0) (实空间) i0_real | 8.4180e+07 |
| I(0) 误差 (实空间) i0_real_error | 1.2180e+06 |
| Rg (倒空间) rg_reciprocal | 27.69 Å |
| I(0) (倒空间) i0_reciprocal | 84180000.0000 |
| 解质量估计 total_estimate | 0.8794 |
| 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 | 30.5 Å |
| 偏度 Skewness skewness | 0.429 |
| 峰度 Kurtosis kurtosis | -0.275 |
| 角度范围 angular_range | — – 0.2850 Å−1 |
| 当前正则化参数 α current_alpha | 0.0002 |
| 最高正则化参数 α highest_alpha | 32920000.0000 |
| 实空间数据点数 n_real_points | 58 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.838; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.987; Smooth: 0.926 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (5)
6. 折叠分类 (SCOP + CATH) 5 domains
SCOP 2.08 (3 domains)
| 结构域编号 domain_id | d1k1wa1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.8 — immunoglobulin/albumin-binding domain-like |
| 超家族 Superfamily superfamily | a.8.3 — Families 57/38 glycoside transferase middle domain |
| 家族 Family family | a.8.3.2 — 4-alpha-glucanotransferase, domain 2 |
| 结构域编号 domain_id | d1k1wa2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.30 — Supersandwich |
| 超家族 Superfamily superfamily | b.30.5 — Galactose mutarotase-like |
| 家族 Family family | b.30.5.8 — 4-alpha-glucanotransferase, C-terminal domain |
| 结构域编号 domain_id | d1k1wa3 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.6 — 7-stranded beta/alpha barrel |
| 超家族 Superfamily superfamily | c.6.2 — Glycoside hydrolase/deacetylase |
| 家族 Family family | c.6.2.2 — 4-alpha-glucanotransferase, N-terminal domain |
CATH v4.4 (2 domains)
| 结构域编号 domain_id | 1k1wA01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 20 — Alpha-Beta Barrel |
| 拓扑 Topology topology | 110 — 7-stranded beta/alpha barrel |
| 同源超家族 H-superfamily homologous superfamily | 20 — |
| 结构域编号 domain_id | 1k1wA02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 70 — Distorted Sandwich |
| 拓扑 Topology topology | 98 — Beta-galactosidase; Chain A, domain 5 |
| 同源超家族 H-superfamily homologous superfamily | 10 — |