2fkw
Structure of LH2 from Rps. acidophila crystallized in lipidic mesophases
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 | 2fkw |
| 沉积日期 deposition_date | 2006-01-05 |
| 结构标题 title | Structure of LH2 from Rps. acidophila crystallized in lipidic mesophases |
| 关键词 keywords | ;Light Harvesting Complex B800-B850, Lipidic Mesophase, crystallization, cubic phase, sponge phase, LDAO, rhodopin glucoside carotenoid, MEMBRANE PROTEIN, PHOTOSYNTHESIS ;; MEMBRANE PROTEIN, PHOTOSYNTHESIS |
| 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 | 33.31 Å |
| 回转半径 Rg (电子) rg_electron | 30.71 Å |
| 零角强度 I(0) i0 | 133993000.00 |
| 分子量 molecular_weight | 129210.0 kDa |
| 排除体积 excluded_volume | 177170 ų |
| 包络体积 envelope_volume | 200480 ų |
| 水化壳体积 shell_volume | 50696 ų |
| 包络直径 envelope_diameter | 100.0 Å |
| 壳层 Rg shell_rg | 40.54 Å |
| 包络 Rg envelope_rg | 30.63 Å |
| 形状 Rg shape_rg | 30.70 Å |
| 总 Rg total_rg | 31.90 Å |
| 总原子数 total_atoms | 9216 |
| 残基数 n_residues | 837 |
| 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 | 95.8 Å |
| Rg (实空间) rg_real | 32.89 Å |
| Rg 误差 (实空间) rg_real_error | 0.56 Å |
| I(0) (实空间) i0_real | 1.3400e+08 |
| I(0) 误差 (实空间) i0_real_error | 2.0790e+06 |
| Rg (倒空间) rg_reciprocal | 33.07 Å |
| I(0) (倒空间) i0_reciprocal | 134000000.0000 |
| 解质量估计 total_estimate | 0.6615 |
| 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 | 47.9 Å |
| 偏度 Skewness skewness | -0.162 |
| 峰度 Kurtosis kurtosis | -0.516 |
| 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 | 37820000.0000 |
| 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: 0.848; Stabil: 1.000; Sysdev: 0.049; Positv: 1.000; Valcen: 0.957; Smooth: 0.948 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (6)
6. 折叠分类 (SCOP + CATH) 36 domains
SCOP 2.08 (18 domains)
| 结构域编号 domain_id | d2fkwa_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwb_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwc_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwd_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwe_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwf_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwg_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwh_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwi_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwj_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwk_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwl_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwm_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwn_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwo_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwp_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkwr_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
| 结构域编号 domain_id | d2fkws_ |
| 类 Class class | f — Membrane and cell surface proteins and peptides |
| 折叠类型 Fold fold | f.3 — Light-harvesting complex subunits |
| 超家族 Superfamily superfamily | f.3.1 — Light-harvesting complex subunits |
| 家族 Family family | f.3.1.1 — Light-harvesting complex subunits |
CATH v4.4 (18 domains)
| 结构域编号 domain_id | 2fkwA00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 220 — Light-harvesting Protein |
| 同源超家族 H-superfamily homologous superfamily | 20 — Light-harvesting complex |
| 结构域编号 domain_id | 2fkwB00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 250 — |
| 结构域编号 domain_id | 2fkwC00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 220 — Light-harvesting Protein |
| 同源超家族 H-superfamily homologous superfamily | 20 — Light-harvesting complex |
| 结构域编号 domain_id | 2fkwD00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 250 — |
| 结构域编号 domain_id | 2fkwE00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 220 — Light-harvesting Protein |
| 同源超家族 H-superfamily homologous superfamily | 20 — Light-harvesting complex |
| 结构域编号 domain_id | 2fkwF00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 250 — |
| 结构域编号 domain_id | 2fkwG00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 220 — Light-harvesting Protein |
| 同源超家族 H-superfamily homologous superfamily | 20 — Light-harvesting complex |
| 结构域编号 domain_id | 2fkwH00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 250 — |
| 结构域编号 domain_id | 2fkwI00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 220 — Light-harvesting Protein |
| 同源超家族 H-superfamily homologous superfamily | 20 — Light-harvesting complex |
| 结构域编号 domain_id | 2fkwJ00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 250 — |
| 结构域编号 domain_id | 2fkwK00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 220 — Light-harvesting Protein |
| 同源超家族 H-superfamily homologous superfamily | 20 — Light-harvesting complex |
| 结构域编号 domain_id | 2fkwL00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 250 — |
| 结构域编号 domain_id | 2fkwM00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 220 — Light-harvesting Protein |
| 同源超家族 H-superfamily homologous superfamily | 20 — Light-harvesting complex |
| 结构域编号 domain_id | 2fkwN00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 250 — |
| 结构域编号 domain_id | 2fkwO00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 220 — Light-harvesting Protein |
| 同源超家族 H-superfamily homologous superfamily | 20 — Light-harvesting complex |
| 结构域编号 domain_id | 2fkwP00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 250 — |
| 结构域编号 domain_id | 2fkwR00 |
| 类 Class class | 4 — Few Secondary Structures |
| 架构 Architecture architecture | 10 — Irregular |
| 拓扑 Topology topology | 220 — Light-harvesting Protein |
| 同源超家族 H-superfamily homologous superfamily | 20 — Light-harvesting complex |
| 结构域编号 domain_id | 2fkwS00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 250 — |