2ckw
The 2.3 A resolution structure of the Sapporo virus RNA dependant RNA polymerase.
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 | 2ckw |
| 沉积日期 deposition_date | 2006-04-24 |
| 结构标题 title | The 2.3 A resolution structure of the Sapporo virus RNA dependant RNA polymerase. |
| 关键词 keywords | ;HYDROLASE, NUCLEOTIDE-BINDING, NUCLEOTIDYLTRANSFERASE, COVALENT PROTEIN-RNA LINKAGE, POLYMERASE, RNA ELONGATION, TRANSFERASE ACTIVITY, MUTANT, CAPSID PROTEIN, RNA REPLICATION, STRUCTURAL PROTEIN, PROTEASE, HELICASE, TRANSFERASE, RNA-DIRECTED RNA POLYMERASE, POLYPROTEIN, ATP-BINDING, THIOL PROTEASE ;; HYDROLASE |
| 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 | 24.72 Å |
| 回转半径 Rg (电子) rg_electron | 23.58 Å |
| 零角强度 I(0) i0 | 47232700.00 |
| 分子量 molecular_weight | 53433.0 kDa |
| 排除体积 excluded_volume | 66906 ų |
| 包络体积 envelope_volume | 81150 ų |
| 水化壳体积 shell_volume | 28285 ų |
| 包络直径 envelope_diameter | 75.2 Å |
| 壳层 Rg shell_rg | 31.05 Å |
| 包络 Rg envelope_rg | 23.21 Å |
| 形状 Rg shape_rg | 23.59 Å |
| 总 Rg total_rg | 24.38 Å |
| 总原子数 total_atoms | 3766 |
| 残基数 n_residues | 487 |
| 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 | 72.4 Å |
| Rg (实空间) rg_real | 24.50 Å |
| Rg 误差 (实空间) rg_real_error | 0.29 Å |
| I(0) (实空间) i0_real | 4.7230e+07 |
| I(0) 误差 (实空间) i0_real_error | 5.4830e+05 |
| Rg (倒空间) rg_reciprocal | 24.55 Å |
| I(0) (倒空间) i0_reciprocal | 47230000.0000 |
| 解质量估计 total_estimate | 0.9132 |
| 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 | 34.5 Å |
| 偏度 Skewness skewness | -0.002 |
| 峰度 Kurtosis kurtosis | -0.615 |
| 角度范围 angular_range | — – 0.3200 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 8424000.0000 |
| 实空间数据点数 n_real_points | 64 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.965; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.988; Smooth: 0.985 |
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) 4 domains
SCOP 2.08 (1 domains)
| 结构域编号 domain_id | d2ckwa_ |
| 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.8.1.0 — automated matches |
CATH v4.4 (3 domains)
| 结构域编号 domain_id | 2ckwA02 |
| 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 | 3230 — |
| 结构域编号 domain_id | 2ckwA03 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 70 — Alpha-Beta Plaits |
| 同源超家族 H-superfamily homologous superfamily | 270 — Reverse transcriptase/Diguanylate cyclase domain |
| 结构域编号 domain_id | 2ckwA04 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 960 — Mitochondrial Import Receptor Subunit Tom20; Chain A |
| 同源超家族 H-superfamily homologous superfamily | 20 — |