1iqp
Crystal Structure of the Clamp Loader Small Subunit from Pyrococcus furiosus
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 | 1iqp |
| 沉积日期 deposition_date | 2001-07-24 |
| 结构标题 title | Crystal Structure of the Clamp Loader Small Subunit from Pyrococcus furiosus |
| 关键词 keywords | CLAMP LOADER, EXTENDED AAA-ATPASE DOMAIN, COMPLEX WITH ADP, REPLICATION; REPLICATION |
| 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 | 43.29 Å |
| 回转半径 Rg (电子) rg_electron | 42.62 Å |
| 零角强度 I(0) i0 | 717078000.00 |
| 分子量 molecular_weight | 224510.0 kDa |
| 排除体积 excluded_volume | 283440 ų |
| 包络体积 envelope_volume | 388710 ų |
| 水化壳体积 shell_volume | 74689 ų |
| 包络直径 envelope_diameter | 139.0 Å |
| 壳层 Rg shell_rg | 49.15 Å |
| 包络 Rg envelope_rg | 41.32 Å |
| 形状 Rg shape_rg | 42.64 Å |
| 总 Rg total_rg | 42.85 Å |
| 总原子数 total_atoms | 15787 |
| 残基数 n_residues | 1949 |
| 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 | 136.3 Å |
| Rg (实空间) rg_real | 43.14 Å |
| Rg 误差 (实空间) rg_real_error | 0.95 Å |
| I(0) (实空间) i0_real | 7.1710e+08 |
| I(0) 误差 (实空间) i0_real_error | 1.1490e+07 |
| Rg (倒空间) rg_reciprocal | 43.29 Å |
| I(0) (倒空间) i0_reciprocal | 717200000.0000 |
| 解质量估计 total_estimate | 0.8924 |
| 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 | 53.0 Å |
| 偏度 Skewness skewness | 0.181 |
| 峰度 Kurtosis kurtosis | -0.541 |
| 角度范围 angular_range | — – 0.1800 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 76570000.0000 |
| 实空间数据点数 n_real_points | 37 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.945; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.992; Smooth: 0.769 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (3)
6. 折叠分类 (SCOP + CATH) 30 domains
SCOP 2.08 (12 domains)
| 结构域编号 domain_id | d1iqpa1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.80 — post-AAA+ oligomerization domain-like |
| 超家族 Superfamily superfamily | a.80.1 — post-AAA+ oligomerization domain-like |
| 家族 Family family | a.80.1.1 — DNA polymerase III clamp loader subunits, C-terminal domain |
| 结构域编号 domain_id | d1iqpa2 |
| 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.37.1.20 — Extended AAA-ATPase domain |
| 结构域编号 domain_id | d1iqpb1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.80 — post-AAA+ oligomerization domain-like |
| 超家族 Superfamily superfamily | a.80.1 — post-AAA+ oligomerization domain-like |
| 家族 Family family | a.80.1.1 — DNA polymerase III clamp loader subunits, C-terminal domain |
| 结构域编号 domain_id | d1iqpb2 |
| 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.37.1.20 — Extended AAA-ATPase domain |
| 结构域编号 domain_id | d1iqpc1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.80 — post-AAA+ oligomerization domain-like |
| 超家族 Superfamily superfamily | a.80.1 — post-AAA+ oligomerization domain-like |
| 家族 Family family | a.80.1.1 — DNA polymerase III clamp loader subunits, C-terminal domain |
| 结构域编号 domain_id | d1iqpc2 |
| 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.37.1.20 — Extended AAA-ATPase domain |
| 结构域编号 domain_id | d1iqpd1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.80 — post-AAA+ oligomerization domain-like |
| 超家族 Superfamily superfamily | a.80.1 — post-AAA+ oligomerization domain-like |
| 家族 Family family | a.80.1.1 — DNA polymerase III clamp loader subunits, C-terminal domain |
| 结构域编号 domain_id | d1iqpd2 |
| 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.37.1.20 — Extended AAA-ATPase domain |
| 结构域编号 domain_id | d1iqpe1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.80 — post-AAA+ oligomerization domain-like |
| 超家族 Superfamily superfamily | a.80.1 — post-AAA+ oligomerization domain-like |
| 家族 Family family | a.80.1.1 — DNA polymerase III clamp loader subunits, C-terminal domain |
| 结构域编号 domain_id | d1iqpe2 |
| 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.37.1.20 — Extended AAA-ATPase domain |
| 结构域编号 domain_id | d1iqpf1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.80 — post-AAA+ oligomerization domain-like |
| 超家族 Superfamily superfamily | a.80.1 — post-AAA+ oligomerization domain-like |
| 家族 Family family | a.80.1.1 — DNA polymerase III clamp loader subunits, C-terminal domain |
| 结构域编号 domain_id | d1iqpf2 |
| 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.37.1.20 — Extended AAA-ATPase domain |
CATH v4.4 (18 domains)
| 结构域编号 domain_id | 1iqpA01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 50 — Rossmann fold |
| 同源超家族 H-superfamily homologous superfamily | 300 — P-loop containing nucleotide triphosphate hydrolases |
| 结构域编号 domain_id | 1iqpA02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 8 — Helicase, Ruva Protein; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 60 — |
| 结构域编号 domain_id | 1iqpA03 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 272 — Zinc Finger, Delta Prime; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1iqpB01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 50 — Rossmann fold |
| 同源超家族 H-superfamily homologous superfamily | 300 — P-loop containing nucleotide triphosphate hydrolases |
| 结构域编号 domain_id | 1iqpB02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 8 — Helicase, Ruva Protein; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 60 — |
| 结构域编号 domain_id | 1iqpB03 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 272 — Zinc Finger, Delta Prime; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1iqpC01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 50 — Rossmann fold |
| 同源超家族 H-superfamily homologous superfamily | 300 — P-loop containing nucleotide triphosphate hydrolases |
| 结构域编号 domain_id | 1iqpC02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 8 — Helicase, Ruva Protein; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 60 — |
| 结构域编号 domain_id | 1iqpC03 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 272 — Zinc Finger, Delta Prime; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1iqpD01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 50 — Rossmann fold |
| 同源超家族 H-superfamily homologous superfamily | 300 — P-loop containing nucleotide triphosphate hydrolases |
| 结构域编号 domain_id | 1iqpD02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 8 — Helicase, Ruva Protein; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 60 — |
| 结构域编号 domain_id | 1iqpD03 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 272 — Zinc Finger, Delta Prime; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1iqpE01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 50 — Rossmann fold |
| 同源超家族 H-superfamily homologous superfamily | 300 — P-loop containing nucleotide triphosphate hydrolases |
| 结构域编号 domain_id | 1iqpE02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 8 — Helicase, Ruva Protein; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 60 — |
| 结构域编号 domain_id | 1iqpE03 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 272 — Zinc Finger, Delta Prime; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1iqpF01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 40 — 3-Layer(aba) Sandwich |
| 拓扑 Topology topology | 50 — Rossmann fold |
| 同源超家族 H-superfamily homologous superfamily | 300 — P-loop containing nucleotide triphosphate hydrolases |
| 结构域编号 domain_id | 1iqpF02 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 8 — Helicase, Ruva Protein; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 60 — |
| 结构域编号 domain_id | 1iqpF03 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 272 — Zinc Finger, Delta Prime; domain 3 |
| 同源超家族 H-superfamily homologous superfamily | 10 — |