The crystal structure of rhinovirus C15 RNA replication element sD-loop mutant in complex with Fab BL3-6

条目编号 entry_id	8vma
沉积日期 deposition_date	2024-01-13
结构标题 title	The crystal structure of rhinovirus C15 RNA replication element sD-loop mutant in complex with Fab BL3-6
关键词 keywords	;Enteroviral RNA, Cloverleaf-like RNA, RVC15 RNA Replication Element, Enterovirus Replication Platform, RNA-Fab complex, RNA, RNA-Immune System complex ;; RNA/Immune System
实验方法 method	X-RAY DIFFRACTION

回转半径 Rg (Guinier) rg_guinier	46.26 Å
回转半径 Rg (电子) rg_electron	45.21 Å
零角强度 I(0) i0	560579000.00
分子量 molecular_weight	150890.0 kDa
排除体积 excluded_volume	170200 ų
包络体积 envelope_volume	262910 ų
水化壳体积 shell_volume	52353 ų
包络直径 envelope_diameter	165.9 Å
壳层 Rg shell_rg	44.96 Å
包络 Rg envelope_rg	44.84 Å
形状 Rg shape_rg	45.04 Å
总 Rg total_rg	45.59 Å
总原子数 total_atoms	10364
残基数 n_residues	1056
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

最大尺寸 Dmax dmax	162.6 Å
Rg (实空间) rg_real	46.82 Å
Rg 误差 (实空间) rg_real_error	2.01 Å
I(0) (实空间) i0_real	5.6060e+08
I(0) 误差 (实空间) i0_real_error	1.1720e+07
Rg (倒空间) rg_reciprocal	46.26 Å
I(0) (倒空间) i0_reciprocal	560200000.0000
解质量估计 total_estimate	0.8180
解质量评级 solution_quality	GOOD a GOOD solution
P(r) 峰数 n_peaks	1
主峰位置 r_peak_primary	43.0 Å
偏度 Skewness skewness	0.558
峰度 Kurtosis kurtosis	-0.341
角度范围 angular_range	— – 0.1700 Å−1
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	24870000.0000
实空间数据点数 n_real_points	35
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.715; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.870; Smooth: 0.616

晶胞参数 Unit Cell

晶胞边长 a length_a	52.993 Å
晶胞边长 b length_b	106.369 Å
晶胞边长 c length_c	142.819 Å
晶胞夹角 α angle_alpha	90.00 °
晶胞夹角 β angle_beta	99.23 °
晶胞夹角 γ angle_gamma	90.00 °
晶胞分子数 Z z_pdb	4

对称性 Symmetry

空间群 space_group	P 1 21 1
空间群编号 int_tables_number	4
晶系 crystal_system	monoclinic

精修参数 Refinement

分辨率 resolution	2.540 Å
最低分辨率 resolution_low	70.480 Å
R 因子 r_factor	0.2067
R_work r_work	0.2051
R_free r_free	0.2445

衍射实验 Diffraction

实验温度 temperature

100.0 K

Files (7)

• pr_distribution /app/data/pr_computation/vm/8vma/pr_distribution.json
• pr_output /app/data/pr_computation/vm/8vma/8vma.pr.out
• pr_plot /app/data/visualization/pr_computation/vm/8vma/8vma_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/vm/8vma/8vma.dat
• saxs_fit /app/data/saxs_computation/vm/8vma/8vma.fit
• saxs_log /app/data/saxs_computation/vm/8vma/8vma.log
• saxs_plot /app/data/visualization/saxs_computation/vm/8vma/8vma_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/vm/8vma/8vma.fit
pddf	/app/data/pr_computation/vm/8vma/8vma.pr.out
profile	/app/data/saxs_computation/vm/8vma/8vma.dat