2f3t
Crystal Structure Of E.coli Guanylate Kinase In Complex With Ganciclovir monophosphate
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 | 2f3t |
| 沉积日期 deposition_date | 2005-11-22 |
| 结构标题 title | Crystal Structure Of E.coli Guanylate Kinase In Complex With Ganciclovir monophosphate |
| 关键词 keywords | TRANSFERASE, GMP KINASE, GUANYLATE KINASE, NUCLEOTIDE ANALOGUE; 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 | 33.99 Å |
| 回转半径 Rg (电子) rg_electron | 32.76 Å |
| 零角强度 I(0) i0 | 320818000.00 |
| 分子量 molecular_weight | 140470.0 kDa |
| 排除体积 excluded_volume | 174680 ų |
| 包络体积 envelope_volume | 231760 ų |
| 水化壳体积 shell_volume | 56648 ų |
| 包络直径 envelope_diameter | 107.2 Å |
| 壳层 Rg shell_rg | 41.37 Å |
| 包络 Rg envelope_rg | 32.30 Å |
| 形状 Rg shape_rg | 32.80 Å |
| 总 Rg total_rg | 33.31 Å |
| 总原子数 total_atoms | 9900 |
| 残基数 n_residues | 1223 |
| 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 | 102.0 Å |
| Rg (实空间) rg_real | 33.76 Å |
| Rg 误差 (实空间) rg_real_error | 0.42 Å |
| I(0) (实空间) i0_real | 3.2080e+08 |
| I(0) 误差 (实空间) i0_real_error | 5.0010e+06 |
| Rg (倒空间) rg_reciprocal | 33.90 Å |
| I(0) (倒空间) i0_reciprocal | 320900000.0000 |
| 解质量估计 total_estimate | 0.8869 |
| 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 | 47.7 Å |
| 偏度 Skewness skewness | 0.076 |
| 峰度 Kurtosis kurtosis | -0.391 |
| 角度范围 angular_range | — – 0.2350 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 69640000.0000 |
| 实空间数据点数 n_real_points | 48 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.900; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.967; Smooth: 0.860 |
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) 18 domains
SCOP 2.08 (6 domains)
| 结构域编号 domain_id | d2f3ta_ |
| 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.37.1.1 — Nucleotide and nucleoside kinases |
| 结构域编号 domain_id | d2f3tb_ |
| 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.37.1.1 — Nucleotide and nucleoside kinases |
| 结构域编号 domain_id | d2f3tc_ |
| 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.37.1.1 — Nucleotide and nucleoside kinases |
| 结构域编号 domain_id | d2f3td_ |
| 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.37.1.1 — Nucleotide and nucleoside kinases |
| 结构域编号 domain_id | d2f3te_ |
| 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.37.1.1 — Nucleotide and nucleoside kinases |
| 结构域编号 domain_id | d2f3tf_ |
| 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.37.1.1 — Nucleotide and nucleoside kinases |
CATH v4.4 (12 domains)
| 结构域编号 domain_id | 2f3tA01 |
| 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 | 2f3tA02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 63 — Guanylate Kinase phosphate binding domain |
| 同源超家族 H-superfamily homologous superfamily | 10 — Guanylate Kinase phosphate binding domain |
| 结构域编号 domain_id | 2f3tB01 |
| 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 | 2f3tB02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 63 — Guanylate Kinase phosphate binding domain |
| 同源超家族 H-superfamily homologous superfamily | 10 — Guanylate Kinase phosphate binding domain |
| 结构域编号 domain_id | 2f3tC01 |
| 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 | 2f3tC02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 63 — Guanylate Kinase phosphate binding domain |
| 同源超家族 H-superfamily homologous superfamily | 10 — Guanylate Kinase phosphate binding domain |
| 结构域编号 domain_id | 2f3tD01 |
| 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 | 2f3tD02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 63 — Guanylate Kinase phosphate binding domain |
| 同源超家族 H-superfamily homologous superfamily | 10 — Guanylate Kinase phosphate binding domain |
| 结构域编号 domain_id | 2f3tE01 |
| 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 | 2f3tE02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 63 — Guanylate Kinase phosphate binding domain |
| 同源超家族 H-superfamily homologous superfamily | 10 — Guanylate Kinase phosphate binding domain |
| 结构域编号 domain_id | 2f3tF01 |
| 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 | 2f3tF02 |
| 类 Class class | 3 — Alpha Beta |
| 架构 Architecture architecture | 30 — 2-Layer Sandwich |
| 拓扑 Topology topology | 63 — Guanylate Kinase phosphate binding domain |
| 同源超家族 H-superfamily homologous superfamily | 10 — Guanylate Kinase phosphate binding domain |