1rwf
Crystal structure of Arthrobacter aurescens chondroitin AC lyase in complex with chondroitin tetrasaccharide
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 | 1rwf |
| 沉积日期 deposition_date | 2003-12-16 |
| 结构标题 title | Crystal structure of Arthrobacter aurescens chondroitin AC lyase in complex with chondroitin tetrasaccharide |
| 关键词 keywords | chondroitinase, chondroitin, chondroitin lyase, lyase; LYASE |
| 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 | 28.29 Å |
| 回转半径 Rg (电子) rg_electron | 27.57 Å |
| 零角强度 I(0) i0 | 108438000.00 |
| 分子量 molecular_weight | 80462.0 kDa |
| 排除体积 excluded_volume | 99972 ų |
| 包络体积 envelope_volume | 120190 ų |
| 水化壳体积 shell_volume | 36113 ų |
| 包络直径 envelope_diameter | 98.9 Å |
| 壳层 Rg shell_rg | 35.41 Å |
| 包络 Rg envelope_rg | 27.73 Å |
| 形状 Rg shape_rg | 27.55 Å |
| 总 Rg total_rg | 28.36 Å |
| 总原子数 total_atoms | 5665 |
| 残基数 n_residues | 754 |
| 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 | 94.0 Å |
| Rg (实空间) rg_real | 28.29 Å |
| Rg 误差 (实空间) rg_real_error | 0.62 Å |
| I(0) (实空间) i0_real | 1.0840e+08 |
| I(0) 误差 (实空间) i0_real_error | 1.6760e+06 |
| Rg (倒空间) rg_reciprocal | 28.29 Å |
| I(0) (倒空间) i0_reciprocal | 108400000.0000 |
| 解质量估计 total_estimate | 0.7062 |
| 解质量评级 solution_quality | REASONABLE a REASONABLE solution |
| P(r) 峰数 n_peaks | 2 |
| 主峰位置 r_peak_primary | 31.9 Å |
| 偏度 Skewness skewness | 0.379 |
| 峰度 Kurtosis kurtosis | -0.322 |
| 角度范围 angular_range | — – 0.2800 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 22230000.0000 |
| 实空间数据点数 n_real_points | 57 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.829; Stabil: 1.000; Sysdev: 0.242; Positv: 1.000; Valcen: 0.990; Smooth: 0.973 |
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) 6 domains
SCOP 2.08 (3 domains)
| 结构域编号 domain_id | d1rwfa1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.102 — alpha/alpha toroid |
| 超家族 Superfamily superfamily | a.102.3 — Chondroitin AC/alginate lyase |
| 家族 Family family | a.102.3.2 — Hyaluronate lyase-like catalytic, N-terminal domain |
| 结构域编号 domain_id | d1rwfa2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.24 — Hyaluronate lyase-like, C-terminal domain |
| 超家族 Superfamily superfamily | b.24.1 — Hyaluronate lyase-like, C-terminal domain |
| 家族 Family family | b.24.1.1 — Hyaluronate lyase-like, C-terminal domain |
| 结构域编号 domain_id | d1rwfa3 |
| 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.30.5.2 — Hyaluronate lyase-like, central domain |
CATH v4.4 (3 domains)
| 结构域编号 domain_id | 1rwfA01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 50 — Alpha/alpha barrel |
| 拓扑 Topology topology | 10 — Glycosyltransferase |
| 同源超家族 H-superfamily homologous superfamily | 100 — Chondroitin AC/alginate lyase |
| 结构域编号 domain_id | 1rwfA02 |
| 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 — |
| 结构域编号 domain_id | 1rwfA03 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 220 — Chondroitinase Ac; Chain A, domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Polysaccharide lyase family 8-like, C-terminal |