2a8v
RHO TRANSCRIPTION TERMINATION FACTOR/RNA COMPLEX
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 | 2a8v |
| 沉积日期 deposition_date | 1998-11-08 |
| 结构标题 title | RHO TRANSCRIPTION TERMINATION FACTOR/RNA COMPLEX |
| 关键词 keywords | RHO, OB FOLD, SINGLE-STRANDED NUCLEIC ACID BINDING DOMAIN, PROTEIN-RNA COMPLEX; PROTEIN/RNA |
| 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 | 43.38 Å |
| 回转半径 Rg (电子) rg_electron | 43.21 Å |
| 零角强度 I(0) i0 | 29662000.00 |
| 分子量 molecular_weight | 42390.0 kDa |
| 排除体积 excluded_volume | 52379 ų |
| 包络体积 envelope_volume | 95695 ų |
| 水化壳体积 shell_volume | 18968 ų |
| 包络直径 envelope_diameter | 122.6 Å |
| 壳层 Rg shell_rg | 48.93 Å |
| 包络 Rg envelope_rg | 39.41 Å |
| 形状 Rg shape_rg | 43.22 Å |
| 总 Rg total_rg | 43.49 Å |
| 总原子数 total_atoms | 2969 |
| 残基数 n_residues | 363 |
| 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 | 123.7 Å |
| Rg (实空间) rg_real | 43.27 Å |
| Rg 误差 (实空间) rg_real_error | 1.18 Å |
| I(0) (实空间) i0_real | 2.9660e+07 |
| I(0) 误差 (实空间) i0_real_error | 4.5390e+05 |
| Rg (倒空间) rg_reciprocal | 43.38 Å |
| I(0) (倒空间) i0_reciprocal | 29670000.0000 |
| 解质量估计 total_estimate | 0.6450 |
| 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 | 75.6 Å |
| 偏度 Skewness skewness | -0.276 |
| 峰度 Kurtosis kurtosis | -1.200 |
| 角度范围 angular_range | — – 0.1800 Å−1 |
| 当前正则化参数 α current_alpha | 0.0000 |
| 最高正则化参数 α highest_alpha | 791700.0000 |
| 实空间数据点数 n_real_points | 37 |
| GNOM 版本 gnom_version | 4.1.3 |
| 质量判据 quality_criteria | AN1: 0.000; Oscil: 0.052; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.606; Smooth: 0.621 |
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 | d2a8va1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.140 — LEM/SAP HeH motif |
| 超家族 Superfamily superfamily | a.140.3 — Rho N-terminal domain-like |
| 家族 Family family | a.140.3.1 — Rho termination factor, N-terminal domain |
| 结构域编号 domain_id | d2a8va2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.40 — OB-fold |
| 超家族 Superfamily superfamily | b.40.4 — Nucleic acid-binding proteins |
| 家族 Family family | b.40.4.5 — Cold shock DNA-binding domain-like |
| 结构域编号 domain_id | d2a8vb1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.140 — LEM/SAP HeH motif |
| 超家族 Superfamily superfamily | a.140.3 — Rho N-terminal domain-like |
| 家族 Family family | a.140.3.1 — Rho termination factor, N-terminal domain |
| 结构域编号 domain_id | d2a8vb2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.40 — OB-fold |
| 超家族 Superfamily superfamily | b.40.4 — Nucleic acid-binding proteins |
| 家族 Family family | b.40.4.5 — Cold shock DNA-binding domain-like |
| 结构域编号 domain_id | d2a8vc1 |
| 类 Class class | a — All alpha proteins |
| 折叠类型 Fold fold | a.140 — LEM/SAP HeH motif |
| 超家族 Superfamily superfamily | a.140.3 — Rho N-terminal domain-like |
| 家族 Family family | a.140.3.1 — Rho termination factor, N-terminal domain |
| 结构域编号 domain_id | d2a8vc2 |
| 类 Class class | b — All beta proteins |
| 折叠类型 Fold fold | b.40 — OB-fold |
| 超家族 Superfamily superfamily | b.40.4 — Nucleic acid-binding proteins |
| 家族 Family family | b.40.4.5 — Cold shock DNA-binding domain-like |
CATH v4.4 (6 domains)
| 结构域编号 domain_id | 2a8vA01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 720 — Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 2a8vA02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 40 — Beta Barrel |
| 拓扑 Topology topology | 50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P) |
| 同源超家族 H-superfamily homologous superfamily | 140 — Nucleic acid-binding proteins |
| 结构域编号 domain_id | 2a8vB01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 720 — Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 2a8vB02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 40 — Beta Barrel |
| 拓扑 Topology topology | 50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P) |
| 同源超家族 H-superfamily homologous superfamily | 140 — Nucleic acid-binding proteins |
| 结构域编号 domain_id | 2a8vC01 |
| 类 Class class | 1 — Mainly Alpha |
| 架构 Architecture architecture | 10 — Orthogonal Bundle |
| 拓扑 Topology topology | 720 — Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 |
| 同源超家族 H-superfamily homologous superfamily | 10 — |
| 结构域编号 domain_id | 2a8vC02 |
| 类 Class class | 2 — Mainly Beta |
| 架构 Architecture architecture | 40 — Beta Barrel |
| 拓扑 Topology topology | 50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P) |
| 同源超家族 H-superfamily homologous superfamily | 140 — Nucleic acid-binding proteins |