1xkm
NMR structure of antimicrobial peptide distinctin in water
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 | 1xkm |
| 沉积日期 deposition_date | 2004-09-29 |
| 结构标题 title | NMR structure of antimicrobial peptide distinctin in water |
| 关键词 keywords | PORE-FORMING PEPTIDE, HETERODIMER, HOMODIMER, DISULFIDE, FOUR-HELIX BUNDLE, ANTIBIOTIC; ANTIBIOTIC |
| 实验方法 method | SOLUTION NMR |
2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)
| 回转半径 Rg (Guinier) rg_guinier | 13.60 Å |
| 回转半径 Rg (电子) rg_electron | 13.54 Å |
| 零角强度 I(0) i0 | 852580000.00 |
| 分子量 molecular_weight | 263410.0 kDa |
| 排除体积 excluded_volume | 338370 ų |
| 包络体积 envelope_volume | 29886 ų |
| 水化壳体积 shell_volume | 15747 ų |
| 包络直径 envelope_diameter | 49.1 Å |
| 壳层 Rg shell_rg | 21.95 Å |
| 包络 Rg envelope_rg | 16.01 Å |
| 形状 Rg shape_rg | 13.47 Å |
| 总 Rg total_rg | 13.99 Å |
| 总原子数 total_atoms | 38928 |
| 残基数 n_residues | 2256 |
| 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 | 42.2 Å |
| Rg (实空间) rg_real | 13.48 Å |
| Rg 误差 (实空间) rg_real_error | 0.29 Å |
| I(0) (实空间) i0_real | 8.5260e+08 |
| I(0) 误差 (实空间) i0_real_error | 8.5150e+06 |
| Rg (倒空间) rg_reciprocal | 13.49 Å |
| I(0) (倒空间) i0_reciprocal | 852600000.0000 |
| 解质量估计 total_estimate | 0.8991 |
| 解质量评级 solution_quality | GOOD a GOOD solution |
| P(r) 峰数 n_peaks | 2 |
| 主峰位置 r_peak_primary | 18.1 Å |
| 偏度 Skewness skewness | -0.118 |
| 峰度 Kurtosis kurtosis | -0.626 |
| 角度范围 angular_range | — – 0.5000 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 72780.0000 |
| 实空间数据点数 n_real_points | 80 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.910; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.959 |
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 (4 domains)
| 结构域编号 domain_id | d1xkma1 |
| 类 Class class | j — Peptides |
| 折叠类型 Fold fold | j.4 — Antimicrobial helix |
| 超家族 Superfamily superfamily | j.4.1 — Antimicrobial helix |
| 家族 Family family | j.4.1.6 — Distinctin |
| 结构域编号 domain_id | d1xkmb1 |
| 类 Class class | j — Peptides |
| 折叠类型 Fold fold | j.4 — Antimicrobial helix |
| 超家族 Superfamily superfamily | j.4.1 — Antimicrobial helix |
| 家族 Family family | j.4.1.6 — Distinctin |
| 结构域编号 domain_id | d1xkmc1 |
| 类 Class class | j — Peptides |
| 折叠类型 Fold fold | j.4 — Antimicrobial helix |
| 超家族 Superfamily superfamily | j.4.1 — Antimicrobial helix |
| 家族 Family family | j.4.1.6 — Distinctin |
| 结构域编号 domain_id | d1xkmd1 |
| 类 Class class | j — Peptides |
| 折叠类型 Fold fold | j.4 — Antimicrobial helix |
| 超家族 Superfamily superfamily | j.4.1 — Antimicrobial helix |
| 家族 Family family | j.4.1.6 — Distinctin |