;Cryo-EM structure of alpha-synuclein filaments from Parkinson's disease with G51D mutaion in SNCA ;

条目编号 entry_id	9o9j
沉积日期 deposition_date	2025-04-18
结构标题 title	;Cryo-EM structure of alpha-synuclein filaments from Parkinson's disease with G51D mutaion in SNCA ;
关键词 keywords	amyloid, filament, synuclein, human brain, cryo-EM, fibril, PD, G51D, mutation, PROTEIN FIBRIL; PROTEIN FIBRIL
实验方法 method	ELECTRON MICROSCOPY

回转半径 Rg (Guinier) rg_guinier	33.71 Å
回转半径 Rg (电子) rg_electron	33.77 Å
零角强度 I(0) i0	4292510.00
分子量 molecular_weight	15263.0 kDa
排除体积 excluded_volume	19174 ų
包络体积 envelope_volume	37165 ų
水化壳体积 shell_volume	10693 ų
包络直径 envelope_diameter	118.2 Å
壳层 Rg shell_rg	33.26 Å
包络 Rg envelope_rg	33.71 Å
形状 Rg shape_rg	33.81 Å
总 Rg total_rg	33.58 Å
总原子数 total_atoms	1074
残基数 n_residues	158
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	114.3 Å
Rg (实空间) rg_real	34.02 Å
Rg 误差 (实空间) rg_real_error	1.22 Å
I(0) (实空间) i0_real	4.2930e+06
I(0) 误差 (实空间) i0_real_error	6.9700e+04
Rg (倒空间) rg_reciprocal	33.83 Å
I(0) (倒空间) i0_reciprocal	4292000.0000
解质量估计 total_estimate	0.8301
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	31.6 Å
偏度 Skewness skewness	0.398
峰度 Kurtosis kurtosis	-0.546
角度范围 angular_range	— – 0.2350 Å−1
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	572000.0000
实空间数据点数 n_real_points	48
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.860; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.553; Smooth: 0.656

晶胞参数 Unit Cell

晶胞边长 a length_a	1.000 Å
晶胞边长 b length_b	1.000 Å
晶胞边长 c length_c	1.000 Å
晶胞夹角 α angle_alpha	90.00 °
晶胞夹角 β angle_beta	90.00 °
晶胞夹角 γ angle_gamma	90.00 °
晶胞分子数 Z z_pdb	—

对称性 Symmetry

空间群 space_group	P 1
空间群编号 int_tables_number	1
晶系 crystal_system	—

精修参数 Refinement

分辨率 resolution	2.300 Å
最低分辨率 resolution_low	2.300 Å
R 因子 r_factor	0.4663
R_work r_work	0.4663
R_free r_free	—

冷冻电镜 EM 3D

分辨率 resolution	2.30 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	247047

Files (7)

• pr_distribution /app/data/pr_computation/o9/9o9j/pr_distribution.json
• pr_output /app/data/pr_computation/o9/9o9j/9o9j.pr.out
• pr_plot /app/data/visualization/pr_computation/o9/9o9j/9o9j_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/o9/9o9j/9o9j.dat
• saxs_fit /app/data/saxs_computation/o9/9o9j/9o9j.fit
• saxs_log /app/data/saxs_computation/o9/9o9j/9o9j.log
• saxs_plot /app/data/visualization/saxs_computation/o9/9o9j/9o9j_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/o9/9o9j/9o9j.fit
pddf	/app/data/pr_computation/o9/9o9j/9o9j.pr.out
profile	/app/data/saxs_computation/o9/9o9j/9o9j.dat