1l9r
CRYSTAL STRUCTURE OF THE I257M VARIANT OF THE COPPER-CONTAINING NITRITE REDUCTASE FROM ALCALIGENES FAECALIS S-6
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 | 1l9r |
| 沉积日期 deposition_date | 2002-03-26 |
| 结构标题 title | CRYSTAL STRUCTURE OF THE I257M VARIANT OF THE COPPER-CONTAINING NITRITE REDUCTASE FROM ALCALIGENES FAECALIS S-6 |
| 关键词 keywords | cupredoxin fold, OXIDOREDUCTASE; OXIDOREDUCTASE |
| 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 | 28.56 Å |
| 回转半径 Rg (电子) rg_electron | 27.57 Å |
| 零角强度 I(0) i0 | 187838000.00 |
| 分子量 molecular_weight | 109320.0 kDa |
| 排除体积 excluded_volume | 136660 ų |
| 包络体积 envelope_volume | 156680 ų |
| 水化壳体积 shell_volume | 44583 ų |
| 包络直径 envelope_diameter | 88.2 Å |
| 壳层 Rg shell_rg | 37.02 Å |
| 包络 Rg envelope_rg | 27.84 Å |
| 形状 Rg shape_rg | 27.54 Å |
| 总 Rg total_rg | 28.50 Å |
| 总原子数 total_atoms | 7695 |
| 残基数 n_residues | 1008 |
| 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 | 82.4 Å |
| Rg (实空间) rg_real | 28.39 Å |
| Rg 误差 (实空间) rg_real_error | 0.43 Å |
| I(0) (实空间) i0_real | 1.8780e+08 |
| I(0) 误差 (实空间) i0_real_error | 2.6070e+06 |
| Rg (倒空间) rg_reciprocal | 28.46 Å |
| I(0) (倒空间) i0_reciprocal | 187800000.0000 |
| 解质量估计 total_estimate | 0.8365 |
| 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 | 35.3 Å |
| 偏度 Skewness skewness | 0.103 |
| 峰度 Kurtosis kurtosis | -0.566 |
| 角度范围 angular_range | — – 0.2800 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 65610000.0000 |
| 实空间数据点数 n_real_points | 57 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.969; Stabil: 0.994; Sysdev: 1.000; Positv: 1.000; Valcen: 0.980; Smooth: 0.000 |
4. 晶体学与实验 4. Crystallography & Experiment
5. 实体与聚合体信息 (4)
6. 折叠分类 (SCOP + CATH) 12 domains
SCOP 2.08 (6 domains)
| 结构域编号 domain_id | d1l9ra1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.6 — Cupredoxin-like |
| 超家族 Superfamily superfamily | b.6.1 — Cupredoxins |
| 家族 Family family | b.6.1.3 — Multidomain cupredoxins |
| 结构域编号 domain_id | d1l9ra2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.6 — Cupredoxin-like |
| 超家族 Superfamily superfamily | b.6.1 — Cupredoxins |
| 家族 Family family | b.6.1.3 — Multidomain cupredoxins |
| 结构域编号 domain_id | d1l9rb1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.6 — Cupredoxin-like |
| 超家族 Superfamily superfamily | b.6.1 — Cupredoxins |
| 家族 Family family | b.6.1.3 — Multidomain cupredoxins |
| 结构域编号 domain_id | d1l9rb2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.6 — Cupredoxin-like |
| 超家族 Superfamily superfamily | b.6.1 — Cupredoxins |
| 家族 Family family | b.6.1.3 — Multidomain cupredoxins |
| 结构域编号 domain_id | d1l9rc1 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.6 — Cupredoxin-like |
| 超家族 Superfamily superfamily | b.6.1 — Cupredoxins |
| 家族 Family family | b.6.1.3 — Multidomain cupredoxins |
| 结构域编号 domain_id | d1l9rc2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.6 — Cupredoxin-like |
| 超家族 Superfamily superfamily | b.6.1 — Cupredoxins |
| 家族 Family family | b.6.1.3 — Multidomain cupredoxins |
CATH v4.4 (6 domains)
| 结构域编号 domain_id | 1l9rA01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 420 — Cupredoxins - blue copper proteins |
| 结构域编号 domain_id | 1l9rA02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 420 — Cupredoxins - blue copper proteins |
| 结构域编号 domain_id | 1l9rB01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 420 — Cupredoxins - blue copper proteins |
| 结构域编号 domain_id | 1l9rB02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 420 — Cupredoxins - blue copper proteins |
| 结构域编号 domain_id | 1l9rC01 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 420 — Cupredoxins - blue copper proteins |
| 结构域编号 domain_id | 1l9rC02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 60 — Sandwich |
| 拓扑 Topology topology | 40 — Immunoglobulin-like |
| 同源超家族 H-superfamily homologous superfamily | 420 — Cupredoxins - blue copper proteins |