1qht
DNA POLYMERASE FROM THERMOCOCCUS SP. 9ON-7 ARCHAEON
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 | 1qht |
| 沉积日期 deposition_date | 1999-05-26 |
| 结构标题 title | DNA POLYMERASE FROM THERMOCOCCUS SP. 9ON-7 ARCHAEON |
| 关键词 keywords | DNA POLYMERASE, ARCHAEA, HYPERTHERMOSTABLE, FAMILY B POLYMERASE, POL ALPHA FAMILY POLYMERASE, transferase; TRANSFERASE |
| 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 | 29.91 Å |
| 回转半径 Rg (电子) rg_electron | 28.92 Å |
| 零角强度 I(0) i0 | 100415000.00 |
| 分子量 molecular_weight | 82087.0 kDa |
| 排除体积 excluded_volume | 104200 ų |
| 包络体积 envelope_volume | 131380 ų |
| 水化壳体积 shell_volume | 37557 ų |
| 包络直径 envelope_diameter | 92.4 Å |
| 壳层 Rg shell_rg | 36.61 Å |
| 包络 Rg envelope_rg | 28.30 Å |
| 形状 Rg shape_rg | 28.90 Å |
| 总 Rg total_rg | 29.77 Å |
| 总原子数 total_atoms | 5803 |
| 残基数 n_residues | 710 |
| 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 | 90.4 Å |
| Rg (实空间) rg_real | 29.73 Å |
| Rg 误差 (实空间) rg_real_error | 0.44 Å |
| I(0) (实空间) i0_real | 1.0040e+08 |
| I(0) 误差 (实空间) i0_real_error | 1.1970e+06 |
| Rg (倒空间) rg_reciprocal | 29.81 Å |
| I(0) (倒空间) i0_reciprocal | 100400000.0000 |
| 解质量估计 total_estimate | 0.9108 |
| 解质量评级 solution_quality | EXCELLENT a EXCELLENT solution |
| P(r) 峰数 n_peaks | 2 |
| 主峰位置 r_peak_primary | 39.2 Å |
| 偏度 Skewness skewness | 0.062 |
| 峰度 Kurtosis kurtosis | -0.626 |
| 角度范围 angular_range | — – 0.2650 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 15710000.0000 |
| 实空间数据点数 n_real_points | 54 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.964; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.990; Smooth: 0.953 |
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) 6 domains
SCOP 2.08 (2 domains)
| 结构域编号 domain_id | d1qhta1 |
| 类 Class class | c — Alpha and beta proteins (a/b) |
| 折叠类型 Fold fold | c.55 — Ribonuclease H-like motif |
| 超家族 Superfamily superfamily | c.55.3 — Ribonuclease H-like |
| 家族 Family family | c.55.3.5 — DnaQ-like 3'-5' exonuclease |
| 结构域编号 domain_id | d1qhta2 |
| 类 Class class | e — Multi-domain proteins (alpha and beta) |
| 折叠类型 Fold fold | e.8 — DNA/RNA polymerases |
| 超家族 Superfamily superfamily | e.8.1 — DNA/RNA polymerases |
| 家族 Family family | e.8.1.1 — DNA polymerase I |
CATH v4.4 (4 domains)
| 结构域编号 domain_id | 1qhtA01 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 342 — DNA Polymerase; Chain A, domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — DNA Polymerase, chain B, domain 1 |
| 结构域编号 domain_id | 1qhtA02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 420 — Nucleotidyltransferase; domain 5 |
| 同源超家族 H-superfamily homologous superfamily | 10 — Ribonuclease H-like superfamily/Ribonuclease H |
| 结构域编号 domain_id | 1qhtA03 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 90 — Alpha-Beta Complex |
| 拓扑 Topology topology | 1600 — Palm domain of DNA polymerase |
| 同源超家族 H-superfamily homologous superfamily | 10 — B family DNA polymerase, palm domain |
| 结构域编号 domain_id | 1qhtA04 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 287 — Helix Hairpins |
| 同源超家族 H-superfamily homologous superfamily | 690 — B family DNA polymerase, finger domain |