1y19
Structural basis for phosphatidylinositol phosphate kinase type I-gamma binding to talin at focal adhesions
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 | 1y19 |
| 沉积日期 deposition_date | 2004-11-17 |
| 结构标题 title | Structural basis for phosphatidylinositol phosphate kinase type I-gamma binding to talin at focal adhesions |
| 关键词 keywords | FOCAL ADHESION; FERM DOMAIN; CYTOSKELETON; NPXY MOTIF; PTB DOMAIN, STRUCTURAL PROTEIN, SIGNALING PROTEIN; STRUCTURAL PROTEIN, SIGNALING PROTEIN |
| 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 | 47.42 Å |
| 回转半径 Rg (电子) rg_electron | 47.04 Å |
| 零角强度 I(0) i0 | 270681000.00 |
| 分子量 molecular_weight | 140040.0 kDa |
| 排除体积 excluded_volume | 177530 ų |
| 包络体积 envelope_volume | 281490 ų |
| 水化壳体积 shell_volume | 52784 ų |
| 包络直径 envelope_diameter | 157.5 Å |
| 壳层 Rg shell_rg | 48.33 Å |
| 包络 Rg envelope_rg | 45.03 Å |
| 形状 Rg shape_rg | 47.02 Å |
| 总 Rg total_rg | 47.19 Å |
| 总原子数 total_atoms | 9882 |
| 残基数 n_residues | 1218 |
| 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 | 153.0 Å |
| Rg (实空间) rg_real | 47.37 Å |
| Rg 误差 (实空间) rg_real_error | 1.61 Å |
| I(0) (实空间) i0_real | 2.7070e+08 |
| I(0) 误差 (实空间) i0_real_error | 5.5820e+06 |
| Rg (倒空间) rg_reciprocal | 47.42 Å |
| I(0) (倒空间) i0_reciprocal | 270700000.0000 |
| 解质量估计 total_estimate | 0.8927 |
| 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 | 55.6 Å |
| 偏度 Skewness skewness | 0.183 |
| 峰度 Kurtosis kurtosis | -0.542 |
| 角度范围 angular_range | — – 0.1650 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 10370000.0000 |
| 实空间数据点数 n_real_points | 34 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.951; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.749 |
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) 24 domains
SCOP 2.08 (12 domains)
| 结构域编号 domain_id | d1y19b1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.11 — Acyl-CoA binding protein-like |
| 超家族 Superfamily superfamily | a.11.2 — Second domain of FERM |
| 家族 Family family | a.11.2.1 — Second domain of FERM |
| 结构域编号 domain_id | d1y19b2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.55 — PH domain-like barrel |
| 超家族 Superfamily superfamily | b.55.1 — PH domain-like |
| 家族 Family family | b.55.1.5 — Third domain of FERM |
| 结构域编号 domain_id | d1y19d1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.11 — Acyl-CoA binding protein-like |
| 超家族 Superfamily superfamily | a.11.2 — Second domain of FERM |
| 家族 Family family | a.11.2.1 — Second domain of FERM |
| 结构域编号 domain_id | d1y19d2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.55 — PH domain-like barrel |
| 超家族 Superfamily superfamily | b.55.1 — PH domain-like |
| 家族 Family family | b.55.1.5 — Third domain of FERM |
| 结构域编号 domain_id | d1y19f1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.11 — Acyl-CoA binding protein-like |
| 超家族 Superfamily superfamily | a.11.2 — Second domain of FERM |
| 家族 Family family | a.11.2.1 — Second domain of FERM |
| 结构域编号 domain_id | d1y19f2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.55 — PH domain-like barrel |
| 超家族 Superfamily superfamily | b.55.1 — PH domain-like |
| 家族 Family family | b.55.1.5 — Third domain of FERM |
| 结构域编号 domain_id | d1y19h1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.11 — Acyl-CoA binding protein-like |
| 超家族 Superfamily superfamily | a.11.2 — Second domain of FERM |
| 家族 Family family | a.11.2.1 — Second domain of FERM |
| 结构域编号 domain_id | d1y19h2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.55 — PH domain-like barrel |
| 超家族 Superfamily superfamily | b.55.1 — PH domain-like |
| 家族 Family family | b.55.1.5 — Third domain of FERM |
| 结构域编号 domain_id | d1y19j1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.11 — Acyl-CoA binding protein-like |
| 超家族 Superfamily superfamily | a.11.2 — Second domain of FERM |
| 家族 Family family | a.11.2.1 — Second domain of FERM |
| 结构域编号 domain_id | d1y19j2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.55 — PH domain-like barrel |
| 超家族 Superfamily superfamily | b.55.1 — PH domain-like |
| 家族 Family family | b.55.1.5 — Third domain of FERM |
| 结构域编号 domain_id | d1y19l1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.11 — Acyl-CoA binding protein-like |
| 超家族 Superfamily superfamily | a.11.2 — Second domain of FERM |
| 家族 Family family | a.11.2.1 — Second domain of FERM |
| 结构域编号 domain_id | d1y19l2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.55 — PH domain-like barrel |
| 超家族 Superfamily superfamily | b.55.1 — PH domain-like |
| 家族 Family family | b.55.1.5 — Third domain of FERM |
CATH v4.4 (12 domains)
| 结构域编号 domain_id | 1y19B01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 80 — Acyl-CoA Binding Protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1y19B02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 29 — PH-domain like |
| 同源超家族 H-superfamily homologous superfamily | 30 — Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) |
| 结构域编号 domain_id | 1y19D01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 80 — Acyl-CoA Binding Protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1y19D02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 29 — PH-domain like |
| 同源超家族 H-superfamily homologous superfamily | 30 — Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) |
| 结构域编号 domain_id | 1y19F01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 80 — Acyl-CoA Binding Protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1y19F02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 29 — PH-domain like |
| 同源超家族 H-superfamily homologous superfamily | 30 — Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) |
| 结构域编号 domain_id | 1y19H01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 80 — Acyl-CoA Binding Protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1y19H02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 29 — PH-domain like |
| 同源超家族 H-superfamily homologous superfamily | 30 — Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) |
| 结构域编号 domain_id | 1y19J01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 80 — Acyl-CoA Binding Protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1y19J02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 29 — PH-domain like |
| 同源超家族 H-superfamily homologous superfamily | 30 — Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) |
| 结构域编号 domain_id | 1y19L01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 80 — Acyl-CoA Binding Protein |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 1y19L02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 30 — Roll |
| 拓扑 Topology topology | 29 — PH-domain like |
| 同源超家族 H-superfamily homologous superfamily | 30 — Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) |