1yce
Structure of the rotor ring of F-type Na+-ATPase from Ilyobacter tartaricus
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 | 1yce |
| 沉积日期 deposition_date | 2004-12-22 |
| 结构标题 title | Structure of the rotor ring of F-type Na+-ATPase from Ilyobacter tartaricus |
| 关键词 keywords | ATP Synthase, Na binding site, membrane protein; MEMBRANE PROTEIN |
| 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 | 61.53 Å |
| 回转半径 Rg (电子) rg_electron | 60.46 Å |
| 零角强度 I(0) i0 | 1789790000.00 |
| 分子量 molecular_weight | 394310.0 kDa |
| 排除体积 excluded_volume | 509590 ų |
| 包络体积 envelope_volume | 651630 ų |
| 水化壳体积 shell_volume | 90064 ų |
| 包络直径 envelope_diameter | 218.0 Å |
| 壳层 Rg shell_rg | 62.93 Å |
| 包络 Rg envelope_rg | 58.87 Å |
| 形状 Rg shape_rg | 60.52 Å |
| 总 Rg total_rg | 60.29 Å |
| 总原子数 total_atoms | 27588 |
| 残基数 n_residues | 3916 |
| 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 | 200.0 Å |
| Rg (实空间) rg_real | 61.79 Å |
| Rg 误差 (实空间) rg_real_error | 2.12 Å |
| I(0) (实空间) i0_real | 1.7900e+09 |
| I(0) 误差 (实空间) i0_real_error | 4.0570e+07 |
| Rg (倒空间) rg_reciprocal | 61.27 Å |
| I(0) (倒空间) i0_reciprocal | 1788000000.0000 |
| 解质量估计 total_estimate | 0.8207 |
| 解质量评级 solution_quality | GOOD a GOOD solution |
| P(r) 峰数 n_peaks | 3 |
| 主峰位置 r_peak_primary | 84.6 Å |
| 偏度 Skewness skewness | 0.381 |
| 峰度 Kurtosis kurtosis | -0.217 |
| 角度范围 angular_range | — – 0.1300 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 369800000.0000 |
| 实空间数据点数 n_real_points | 27 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.780; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.327 |
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) 44 domains
CATH v4.4 (44 domains)
| 结构域编号 domain_id | 1yceA01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceB01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceC01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceD01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceE01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceF01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceG01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceH01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceI01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceJ01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceK01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceL01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceM01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceN01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceO01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceP01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceQ01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceR01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceS01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceT01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceU01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceV01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycea01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceb01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycec01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yced01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycee01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycef01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceg01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceh01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycei01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycej01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycek01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycel01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycem01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycen01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceo01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycep01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceq01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycer01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yces01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycet01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1yceu01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |
| 结构域编号 domain_id | 1ycev01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 20 — F1FO ATP Synthase |
| 同源超家族 H-superfamily homologous superfamily | 10 — F1F0 ATP synthase subunit C |