2gtl
Lumbricus Erythrocruorin at 3.5A resolution
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 | 2gtl |
| 沉积日期 deposition_date | 2006-04-28 |
| 结构标题 title | Lumbricus Erythrocruorin at 3.5A resolution |
| 关键词 keywords | ;Annelid erythrocruorins, respiratory protein, hexagonal bilayer, dihedral D6 symmetry, triple stranded helical coils, OXYGEN STORAGE-TRANSPORT COMPLEX ;; OXYGEN STORAGE/TRANSPORT |
| 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 | 42.36 Å |
| 回转半径 Rg (电子) rg_electron | 41.86 Å |
| 零角强度 I(0) i0 | 1172260000.00 |
| 分子量 molecular_weight | 278620.0 kDa |
| 排除体积 excluded_volume | 346720 ų |
| 包络体积 envelope_volume | 467330 ų |
| 水化壳体积 shell_volume | 90048 ų |
| 包络直径 envelope_diameter | 148.1 Å |
| 壳层 Rg shell_rg | 50.08 Å |
| 包络 Rg envelope_rg | 40.49 Å |
| 形状 Rg shape_rg | 41.88 Å |
| 总 Rg total_rg | 42.21 Å |
| 总原子数 total_atoms | 19648 |
| 残基数 n_residues | 2395 |
| 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 | 133.4 Å |
| Rg (实空间) rg_real | 42.09 Å |
| Rg 误差 (实空间) rg_real_error | 0.84 Å |
| I(0) (实空间) i0_real | 1.1720e+09 |
| I(0) 误差 (实空间) i0_real_error | 2.0060e+07 |
| Rg (倒空间) rg_reciprocal | 42.36 Å |
| I(0) (倒空间) i0_reciprocal | 1173000000.0000 |
| 解质量估计 total_estimate | 0.8753 |
| 解质量评级 solution_quality | GOOD a GOOD solution |
| P(r) 峰数 n_peaks | 2 |
| 主峰位置 r_peak_primary | 57.7 Å |
| 偏度 Skewness skewness | 0.084 |
| 峰度 Kurtosis kurtosis | -0.362 |
| 角度范围 angular_range | — – 0.1850 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 238700000.0000 |
| 实空间数据点数 n_real_points | 38 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.842; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.956; Smooth: 0.893 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (11)
6. 折叠分类 (SCOP + CATH) 39 domains
SCOP 2.08 (21 domains)
| 结构域编号 domain_id | d2gtla1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtlb1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtlc1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtld1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtle1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtlf1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtlg1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtlh1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtli1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtlj1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtlk1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtll1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.1 — Globin-like |
| 超家族 Superfamily superfamily | a.1.1 — Globin-like |
| 家族 Family family | a.1.1.2 — Globins |
| 结构域编号 domain_id | d2gtlm1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.61 — Streptavidin-like |
| 超家族 Superfamily superfamily | b.61.7 — Extracellular hemoglobin linker subunit, receptor domain |
| 家族 Family family | b.61.7.1 — Extracellular hemoglobin linker subunit, receptor domain |
| 结构域编号 domain_id | d2gtlm2 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.12 — LDL receptor-like module |
| 超家族 Superfamily superfamily | g.12.1 — LDL receptor-like module |
| 家族 Family family | g.12.1.1 — LDL receptor-like module |
| 结构域编号 domain_id | d2gtlm3 |
| 类 Class class | h — Coiled coil proteins |
| 折叠类型 Fold fold | h.1 — Parallel coiled-coil |
| 超家族 Superfamily superfamily | h.1.32 — Heterotrimerisation domain of extracellular hemoglobin linker subunits |
| 家族 Family family | h.1.32.1 — Heterotrimerisation domain of extracellular hemoglobin linker subunits |
| 结构域编号 domain_id | d2gtln1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.61 — Streptavidin-like |
| 超家族 Superfamily superfamily | b.61.7 — Extracellular hemoglobin linker subunit, receptor domain |
| 家族 Family family | b.61.7.1 — Extracellular hemoglobin linker subunit, receptor domain |
| 结构域编号 domain_id | d2gtln2 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.12 — LDL receptor-like module |
| 超家族 Superfamily superfamily | g.12.1 — LDL receptor-like module |
| 家族 Family family | g.12.1.1 — LDL receptor-like module |
| 结构域编号 domain_id | d2gtln3 |
| 类 Class class | h — Coiled coil proteins |
| 折叠类型 Fold fold | h.1 — Parallel coiled-coil |
| 超家族 Superfamily superfamily | h.1.32 — Heterotrimerisation domain of extracellular hemoglobin linker subunits |
| 家族 Family family | h.1.32.1 — Heterotrimerisation domain of extracellular hemoglobin linker subunits |
| 结构域编号 domain_id | d2gtlo1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.61 — Streptavidin-like |
| 超家族 Superfamily superfamily | b.61.7 — Extracellular hemoglobin linker subunit, receptor domain |
| 家族 Family family | b.61.7.1 — Extracellular hemoglobin linker subunit, receptor domain |
| 结构域编号 domain_id | d2gtlo2 |
| 类 Class class | g — Small proteins |
| 折叠类型 Fold fold | g.12 — LDL receptor-like module |
| 超家族 Superfamily superfamily | g.12.1 — LDL receptor-like module |
| 家族 Family family | g.12.1.1 — LDL receptor-like module |
| 结构域编号 domain_id | d2gtlo3 |
| 类 Class class | h — Coiled coil proteins |
| 折叠类型 Fold fold | h.1 — Parallel coiled-coil |
| 超家族 Superfamily superfamily | h.1.32 — Heterotrimerisation domain of extracellular hemoglobin linker subunits |
| 家族 Family family | h.1.32.1 — Heterotrimerisation domain of extracellular hemoglobin linker subunits |
CATH v4.4 (18 domains)
| 结构域编号 domain_id | 2gtlA00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlB00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlC00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlD00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlE00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlF00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlG00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlH00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlI00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlJ00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlK00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlL00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 490 — Globin-like |
| 同源超家族 H-superfamily homologous superfamily | 10 — Globins |
| 结构域编号 domain_id | 2gtlM01 |
| 类 Class class | 6 — Special |
| 架构 Architecture architecture | 10 — Helix non-globular |
| 拓扑 Topology topology | 250 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 1520 — |
| 结构域编号 domain_id | 2gtlM02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 40 — Beta Barrel |
| 拓扑 Topology topology | 128 — Lipocalin |
| 同源超家族 H-superfamily homologous superfamily | 620 — |
| 结构域编号 domain_id | 2gtlN01 |
| 类 Class class | 6 — Special |
| 架构 Architecture architecture | 10 — Helix non-globular |
| 拓扑 Topology topology | 250 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 1530 — |
| 结构域编号 domain_id | 2gtlN02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 40 — Beta Barrel |
| 拓扑 Topology topology | 128 — Lipocalin |
| 同源超家族 H-superfamily homologous superfamily | 620 — |
| 结构域编号 domain_id | 2gtlO01 |
| 类 Class class | 6 — Special |
| 架构 Architecture architecture | 10 — Helix non-globular |
| 拓扑 Topology topology | 250 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 1540 — |
| 结构域编号 domain_id | 2gtlO02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 40 — Beta Barrel |
| 拓扑 Topology topology | 128 — Lipocalin |
| 同源超家族 H-superfamily homologous superfamily | 620 — |