1qzw
Crystal structure of the complete core of archaeal SRP and implications for inter-domain communication
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 | 1qzw |
| 沉积日期 deposition_date | 2003-09-18 |
| 结构标题 title | Crystal structure of the complete core of archaeal SRP and implications for inter-domain communication |
| 关键词 keywords | Signal recognition particle, SRP, ribonucleoprotein complex, protein-RNA complex, protein targeting, Signaling Protein-RNA COMPLEX; Signaling Protein/RNA |
| 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 | 62.39 Å |
| 回转半径 Rg (电子) rg_electron | 60.41 Å |
| 零角强度 I(0) i0 | 1272360000.00 |
| 分子量 molecular_weight | 256190.0 kDa |
| 排除体积 excluded_volume | 303780 ų |
| 包络体积 envelope_volume | 575770 ų |
| 水化壳体积 shell_volume | 83305 ų |
| 包络直径 envelope_diameter | 190.6 Å |
| 壳层 Rg shell_rg | 56.07 Å |
| 包络 Rg envelope_rg | 58.63 Å |
| 形状 Rg shape_rg | 60.29 Å |
| 总 Rg total_rg | 60.64 Å |
| 总原子数 total_atoms | 17720 |
| 残基数 n_residues | 1908 |
| 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 | 179.4 Å |
| Rg (实空间) rg_real | 62.55 Å |
| Rg 误差 (实空间) rg_real_error | 1.15 Å |
| I(0) (实空间) i0_real | 1.2720e+09 |
| I(0) 误差 (实空间) i0_real_error | 2.5040e+07 |
| Rg (倒空间) rg_reciprocal | 62.18 Å |
| I(0) (倒空间) i0_reciprocal | 1271000000.0000 |
| 解质量估计 total_estimate | 0.8332 |
| 解质量评级 solution_quality | GOOD a GOOD solution |
| P(r) 峰数 n_peaks | 1 |
| 主峰位置 r_peak_primary | 64.6 Å |
| 偏度 Skewness skewness | 0.286 |
| 峰度 Kurtosis kurtosis | -0.689 |
| 角度范围 angular_range | — – 0.1250 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 41370000.0000 |
| 实空间数据点数 n_real_points | 26 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.949; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.980; Smooth: 0.000 |
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 (12 domains)
| 结构域编号 domain_id | d1qzwa1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.24 — Four-helical up-and-down bundle |
| 超家族 Superfamily superfamily | a.24.13 — Domain of the SRP/SRP receptor G-proteins |
| 家族 Family family | a.24.13.1 — Domain of the SRP/SRP receptor G-proteins |
| 结构域编号 domain_id | d1qzwa2 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.36 — Signal peptide-binding domain |
| 超家族 Superfamily superfamily | a.36.1 — Signal peptide-binding domain |
| 家族 Family family | a.36.1.1 — Signal peptide-binding domain |
| 结构域编号 domain_id | d1qzwa3 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.37 — P-loop containing nucleoside triphosphate hydrolases |
| 超家族 Superfamily superfamily | c.37.1 — P-loop containing nucleoside triphosphate hydrolases |
| 家族 Family family | c.37.1.10 — Nitrogenase iron protein-like |
| 结构域编号 domain_id | d1qzwc1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.24 — Four-helical up-and-down bundle |
| 超家族 Superfamily superfamily | a.24.13 — Domain of the SRP/SRP receptor G-proteins |
| 家族 Family family | a.24.13.1 — Domain of the SRP/SRP receptor G-proteins |
| 结构域编号 domain_id | d1qzwc2 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.36 — Signal peptide-binding domain |
| 超家族 Superfamily superfamily | a.36.1 — Signal peptide-binding domain |
| 家族 Family family | a.36.1.1 — Signal peptide-binding domain |
| 结构域编号 domain_id | d1qzwc3 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.37 — P-loop containing nucleoside triphosphate hydrolases |
| 超家族 Superfamily superfamily | c.37.1 — P-loop containing nucleoside triphosphate hydrolases |
| 家族 Family family | c.37.1.10 — Nitrogenase iron protein-like |
| 结构域编号 domain_id | d1qzwe1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.24 — Four-helical up-and-down bundle |
| 超家族 Superfamily superfamily | a.24.13 — Domain of the SRP/SRP receptor G-proteins |
| 家族 Family family | a.24.13.1 — Domain of the SRP/SRP receptor G-proteins |
| 结构域编号 domain_id | d1qzwe2 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.36 — Signal peptide-binding domain |
| 超家族 Superfamily superfamily | a.36.1 — Signal peptide-binding domain |
| 家族 Family family | a.36.1.1 — Signal peptide-binding domain |
| 结构域编号 domain_id | d1qzwe3 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.37 — P-loop containing nucleoside triphosphate hydrolases |
| 超家族 Superfamily superfamily | c.37.1 — P-loop containing nucleoside triphosphate hydrolases |
| 家族 Family family | c.37.1.10 — Nitrogenase iron protein-like |
| 结构域编号 domain_id | d1qzwg1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.24 — Four-helical up-and-down bundle |
| 超家族 Superfamily superfamily | a.24.13 — Domain of the SRP/SRP receptor G-proteins |
| 家族 Family family | a.24.13.1 — Domain of the SRP/SRP receptor G-proteins |
| 结构域编号 domain_id | d1qzwg2 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.36 — Signal peptide-binding domain |
| 超家族 Superfamily superfamily | a.36.1 — Signal peptide-binding domain |
| 家族 Family family | a.36.1.1 — Signal peptide-binding domain |
| 结构域编号 domain_id | d1qzwg3 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.37 — P-loop containing nucleoside triphosphate hydrolases |
| 超家族 Superfamily superfamily | c.37.1 — P-loop containing nucleoside triphosphate hydrolases |
| 家族 Family family | c.37.1.10 — Nitrogenase iron protein-like |