1jcd
;Crystal Structure of a Novel Alanine-Zipper Trimer at 1.3 A Resolution, I6A,L9A,V13A,L16A,V20A,L23A,V27A,M30A,V34A,L48A,M51A mutations ;
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 | 1jcd |
| 沉积日期 deposition_date | 2001-06-08 |
| 结构标题 title | ;Crystal Structure of a Novel Alanine-Zipper Trimer at 1.3 A Resolution, I6A,L9A,V13A,L16A,V20A,L23A,V27A,M30A,V34A,L48A,M51A mutations ; |
| 关键词 keywords | LIPOPROTEIN, PROTEIN FOLDING, COILED COIL, HELIX CAPPING, ALANINE-ZIPPER, MEMBRANE PROTEIN; MEMBRANE 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 | 22.09 Å |
| 回转半径 Rg (电子) rg_electron | 22.46 Å |
| 零角强度 I(0) i0 | 6447620.00 |
| 分子量 molecular_weight | 15026.0 kDa |
| 排除体积 excluded_volume | 17284 ų |
| 包络体积 envelope_volume | 23158 ų |
| 水化壳体积 shell_volume | 10735 ų |
| 包络直径 envelope_diameter | 87.3 Å |
| 壳层 Rg shell_rg | 25.03 Å |
| 包络 Rg envelope_rg | 23.51 Å |
| 形状 Rg shape_rg | 22.43 Å |
| 总 Rg total_rg | 22.88 Å |
| 总原子数 total_atoms | 1052 |
| 残基数 n_residues | 152 |
| 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 | 86.5 Å |
| Rg (实空间) rg_real | 22.77 Å |
| Rg 误差 (实空间) rg_real_error | 1.14 Å |
| I(0) (实空间) i0_real | 6.4480e+06 |
| I(0) 误差 (实空间) i0_real_error | 9.9170e+04 |
| Rg (倒空间) rg_reciprocal | 22.65 Å |
| I(0) (倒空间) i0_reciprocal | 6447000.0000 |
| 解质量估计 total_estimate | 0.6436 |
| 解质量评级 solution_quality | REASONABLE a REASONABLE solution |
| P(r) 峰数 n_peaks | 2 |
| 主峰位置 r_peak_primary | 14.2 Å |
| 偏度 Skewness skewness | 0.728 |
| 峰度 Kurtosis kurtosis | -0.207 |
| 角度范围 angular_range | — – 0.3600 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 1995000.0000 |
| 实空间数据点数 n_real_points | 68 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.119; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.007; Smooth: 0.998 |
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 (3 domains)
| 结构域编号 domain_id | d1jcda_ |
| 类 Class class | h — Coiled coil proteins |
| 折叠类型 Fold fold | h.1 — Parallel coiled-coil |
| 超家族 Superfamily superfamily | h.1.16 — Outer membrane lipoprotein |
| 家族 Family family | h.1.16.1 — Outer membrane lipoprotein |
| 结构域编号 domain_id | d1jcdb_ |
| 类 Class class | h — Coiled coil proteins |
| 折叠类型 Fold fold | h.1 — Parallel coiled-coil |
| 超家族 Superfamily superfamily | h.1.16 — Outer membrane lipoprotein |
| 家族 Family family | h.1.16.1 — Outer membrane lipoprotein |
| 结构域编号 domain_id | d1jcdc_ |
| 类 Class class | h — Coiled coil proteins |
| 折叠类型 Fold fold | h.1 — Parallel coiled-coil |
| 超家族 Superfamily superfamily | h.1.16 — Outer membrane lipoprotein |
| 家族 Family family | h.1.16.1 — Outer membrane lipoprotein |
CATH v4.4 (3 domains)
| 结构域编号 domain_id | 1jcdA00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 190 — |
| 结构域编号 domain_id | 1jcdB00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 190 — |
| 结构域编号 domain_id | 1jcdC00 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 20 — Up-down Bundle |
| 拓扑 Topology topology | 5 — Single alpha-helices involved in coiled-coils or other helix-helix interfaces |
| 同源超家族 H-superfamily homologous superfamily | 190 — |