1r5z
Crystal Structure of Subunit C of V-ATPase
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 | 1r5z |
| 沉积日期 deposition_date | 2003-10-14 |
| 结构标题 title | Crystal Structure of Subunit C of V-ATPase |
| 关键词 keywords | alpha-helix, HYDROLASE; HYDROLASE |
| 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 | 33.26 Å |
| 回转半径 Rg (电子) rg_electron | 32.35 Å |
| 零角强度 I(0) i0 | 172127000.00 |
| 分子量 molecular_weight | 106810.0 kDa |
| 排除体积 excluded_volume | 135040 ų |
| 包络体积 envelope_volume | 174170 ų |
| 水化壳体积 shell_volume | 44833 ų |
| 包络直径 envelope_diameter | 99.2 Å |
| 壳层 Rg shell_rg | 39.43 Å |
| 包络 Rg envelope_rg | 31.80 Å |
| 形状 Rg shape_rg | 32.35 Å |
| 总 Rg total_rg | 32.95 Å |
| 总原子数 total_atoms | 7542 |
| 残基数 n_residues | 960 |
| 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 | 99.8 Å |
| Rg (实空间) rg_real | 33.07 Å |
| Rg 误差 (实空间) rg_real_error | 0.67 Å |
| I(0) (实空间) i0_real | 1.7210e+08 |
| I(0) 误差 (实空间) i0_real_error | 2.6010e+06 |
| Rg (倒空间) rg_reciprocal | 33.15 Å |
| I(0) (倒空间) i0_reciprocal | 172100000.0000 |
| 解质量估计 total_estimate | 0.9074 |
| 解质量评级 solution_quality | EXCELLENT a EXCELLENT solution |
| P(r) 峰数 n_peaks | 1 |
| 主峰位置 r_peak_primary | 39.5 Å |
| 偏度 Skewness skewness | 0.123 |
| 峰度 Kurtosis kurtosis | -0.653 |
| 角度范围 angular_range | — – 0.2400 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 27890000.0000 |
| 实空间数据点数 n_real_points | 49 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.976; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.868 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (2)
6. 折叠分类 (SCOP + CATH) 12 domains
SCOP 2.08 (3 domains)
| 结构域编号 domain_id | d1r5za_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.40 — V-type ATP synthase subunit C |
| 超家族 Superfamily superfamily | f.40.1 — V-type ATP synthase subunit C |
| 家族 Family family | f.40.1.1 — V-type ATP synthase subunit C |
| 结构域编号 domain_id | d1r5zb_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.40 — V-type ATP synthase subunit C |
| 超家族 Superfamily superfamily | f.40.1 — V-type ATP synthase subunit C |
| 家族 Family family | f.40.1.1 — V-type ATP synthase subunit C |
| 结构域编号 domain_id | d1r5zc_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.40 — V-type ATP synthase subunit C |
| 超家族 Superfamily superfamily | f.40.1 — V-type ATP synthase subunit C |
| 家族 Family family | f.40.1.1 — V-type ATP synthase subunit C |
CATH v4.4 (9 domains)
| 结构域编号 domain_id | 1r5zA01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 132 — Topoisomerase I; Chain A, domain 4 |
| 同源超家族 H-superfamily homologous superfamily | 50 — ATP synthase (C/AC39) subunit, domain 3 |
| 结构域编号 domain_id | 1r5zA02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 1690 — V-type ATP synthase subunit C fold |
| 同源超家族 H-superfamily homologous superfamily | 10 — V-type ATP synthase subunit C domain |
| 结构域编号 domain_id | 1r5zA03 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 1690 — V-type ATP synthase subunit C fold |
| 同源超家族 H-superfamily homologous superfamily | 10 — V-type ATP synthase subunit C domain |
| 结构域编号 domain_id | 1r5zB01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 132 — Topoisomerase I; Chain A, domain 4 |
| 同源超家族 H-superfamily homologous superfamily | 50 — ATP synthase (C/AC39) subunit, domain 3 |
| 结构域编号 domain_id | 1r5zB02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 1690 — V-type ATP synthase subunit C fold |
| 同源超家族 H-superfamily homologous superfamily | 10 — V-type ATP synthase subunit C domain |
| 结构域编号 domain_id | 1r5zB03 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 1690 — V-type ATP synthase subunit C fold |
| 同源超家族 H-superfamily homologous superfamily | 10 — V-type ATP synthase subunit C domain |
| 结构域编号 domain_id | 1r5zC01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 132 — Topoisomerase I; Chain A, domain 4 |
| 同源超家族 H-superfamily homologous superfamily | 50 — ATP synthase (C/AC39) subunit, domain 3 |
| 结构域编号 domain_id | 1r5zC02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 1690 — V-type ATP synthase subunit C fold |
| 同源超家族 H-superfamily homologous superfamily | 10 — V-type ATP synthase subunit C domain |
| 结构域编号 domain_id | 1r5zC03 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 1690 — V-type ATP synthase subunit C fold |
| 同源超家族 H-superfamily homologous superfamily | 10 — V-type ATP synthase subunit C domain |