8vtv

;Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-91, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.55A resolution ;

Method: X-RAY DIFFRACTION Dmax: 376.7 Å Quality: EXCELLENT

SAXS 散射曲线 SAXS Profile

SAXS profile for 8vtv

P(r) 距离分布 P(r) Distribution

P(r) distribution for 8vtv
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1. 结构基本信息 1. Structure Basics

条目编号 entry_id8vtv
沉积日期 deposition_date2024-01-27
结构标题 title;Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with macrolone MCX-91, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.55A resolution ;
关键词 keywords;Macrolone; macrolide; fluoroquinolone; erythromycin; ciprofloxacin; antibiotic; 70S ribosome; X-ray structure; inhibition of translation; peptidyl transferase center; nascent peptide exit tunnel; multidrug; resistance; methylation; 23S rRNA; A2058; ERM, RIBOSOME ;; RIBOSOME
实验方法 methodX-RAY DIFFRACTION

2. SAXS 参数 (CRYSOL 理论计算) 2. SAXS Parameters (CRYSOL)

回转半径 Rg (Guinier) rg_guinier
回转半径 Rg (电子) rg_electron136.10
零角强度 I(0) i0901256000000.00
分子量 molecular_weight4206300.0 kDa
排除体积 excluded_volume3438600 ų
包络体积 envelope_volume8606100 ų
水化壳体积 shell_volume512750 ų
包络直径 envelope_diameter477.4
壳层 Rg shell_rg128.50
包络 Rg envelope_rg133.90
形状 Rg shape_rg136.40
总 Rg total_rg135.80
总原子数 total_atoms296015
残基数 n_residues20873
球谐函数阶数 n_harmonics20
q 范围 q_range— – 0.5000 −1
数据点数 n_points101
壳层类型 shell_typedirectional
溶剂电子密度 solvent_density0.3340 e/ų
壳层衬度 contrast_shell0.0300 e/ų
CRYSOL 版本 crysol_version4.1.3

3. P(r) 距离分布 (GNOM 反演) 3. P(r) Analysis (GNOM)

最大尺寸 Dmax dmax376.7
Rg (实空间) rg_real129.50
Rg 误差 (实空间) rg_real_error1.51
I(0) (实空间) i0_real8.6530e+11
I(0) 误差 (实空间) i0_real_error1.9590e+10
Rg (倒空间) rg_reciprocal118.60
I(0) (倒空间) i0_reciprocal845700000000.0000
解质量估计 total_estimate0.9042
解质量评级 solution_quality EXCELLENT a EXCELLENT solution
P(r) 峰数 n_peaks1
主峰位置 r_peak_primary137.0
偏度 Skewness skewness0.365
峰度 Kurtosis kurtosis-0.717
角度范围 angular_range— – 0.0550 −1
当前正则化参数 α current_alpha1.0150
最高正则化参数 α highest_alpha14360000000.0000
实空间数据点数 n_real_points12
GNOM 版本 gnom_version4.1.3
质量判据 quality_criteria AN1: 0.002; Oscil: 0.973; Stabil: 0.967; Sysdev: 1.000; Positv: 1.000; Valcen: 0.936; Smooth: 0.000

4. 晶体学与实验 4. Crystallography & Experiment

5. 实体与聚合体信息 (64)

7. 引用文献 (1)

8. 文件与曲线 (10)