8hw1

Far-red light-harvesting complex of Antarctic alga Prasiola crispa

Method: ELECTRON MICROSCOPY D_max: 173.8 Å Quality: REASONABLE

SAXS 散射曲线 SAXS Profile

P(r) 距离分布 P(r) Distribution

下载 Download SAXS (.dat) P(r) (.pr.out) CIF

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1. 结构基本信息 1. Structure Basics

条目编号 entry_id	8hw1
沉积日期 deposition_date	2022-12-28
结构标题 title	Far-red light-harvesting complex of Antarctic alga Prasiola crispa
关键词 keywords	undecameric ring, light-harvesting complex, PHOTOSYNTHESIS; PHOTOSYNTHESIS
实验方法 method	ELECTRON MICROSCOPY

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

回转半径 Rg (Guinier) rg_guinier	72.64 Å
回转半径 Rg (电子) rg_electron	72.40 Å
零角强度 I(0) i0	1434340000.00
分子量 molecular_weight	409560.0 kDa
排除体积 excluded_volume	544450 Å³
包络体积 envelope_volume	973110 Å³
水化壳体积 shell_volume	109480 Å³
包络直径 envelope_diameter	187.6 Å
壳层 Rg shell_rg	84.13 Å
包络 Rg envelope_rg	65.02 Å
形状 Rg shape_rg	72.36 Å
总 Rg total_rg	72.79 Å
总原子数 total_atoms	29271
残基数 n_residues	2651
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/Å³
壳层衬度 contrast_shell	0.0300 e/Å³
CRYSOL 版本 crysol_version	4.1.3

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

最大尺寸 Dmax dmax	173.8 Å
Rg (实空间) rg_real	72.32 Å
Rg 误差 (实空间) rg_real_error	0.82 Å
I(0) (实空间) i0_real	1.4340e+09
I(0) 误差 (实空间) i0_real_error	2.3030e+07
Rg (倒空间) rg_reciprocal	73.45 Å
I(0) (倒空间) i0_reciprocal	1437000000.0000
解质量估计 total_estimate	0.7209
解质量评级 solution_quality	REASONABLE a REASONABLE solution
P(r) 峰数 n_peaks	1
主峰位置 r_peak_primary	47.4 Å
偏度 Skewness skewness	-0.278
峰度 Kurtosis kurtosis	-1.077
角度范围 angular_range	— – 0.1100 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	52780000.0000
实空间数据点数 n_real_points	23
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.783; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.018; Smooth: 0.000

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

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5. 实体与聚合体信息 (4)

Entity 1 polymer

描述 description	Far-red light-harvesting complex
分子量 formula_weight	33495.5 kDa
来源方法 src_method	nat
拷贝数 entity_count	11

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,B,C,D,E,F,G,H,I,J,K
原子数 atom_count	29271

MAPYSVVASVLAAAPPQQSGSVRQLPSTINRAITQRSQSRHVASASSASSPTTMLEERDNLWEIGGPYWWPFSSFTPPAHLDGSLPGDRGFDPFSLGTSWGQPPVDVSDPNYDESRLRWLLEGELYNGRLAMLAVVGVLTVEAQGKGPWWEIPGNLNLFGTPYVVAVVGGHLAFALLEKKRLENFRETGEAGHFGAARFDPLDLTEANPLGTDYNRQAEVRNCRLAMLTFLGFSVQAWVTGKGPIENAKDHLASPFEANIFTYGDRGTNVVAIFSAFAAVMHIAELAREKKAEDKPRSRNRTLSGSS

Entity 2 non-polymer

描述 description	CHLOROPHYLL A
分子量 formula_weight	893.5 kDa
来源方法 src_method	syn
拷贝数 entity_count	121

Entity 3 non-polymer

描述 description	;(3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL ;
分子量 formula_weight	600.9 kDa
来源方法 src_method	syn
拷贝数 entity_count	11

Entity 4 non-polymer

描述 description	;(1S)-4-[(1E,3Z,5E,7E,9E,11E,13E,15E,17E)-3-(hydroxymethyl)-7,12,16-trimethyl-18-[(1R,4S)-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]-3,5,5-trimethyl-cyclohex-3-en-1-ol ;
分子量 formula_weight	584.9 kDa
来源方法 src_method	syn
拷贝数 entity_count	11

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7. 引用文献 (1)

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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	—

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

分辨率 resolution	3.13 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	99510

fit	/app/data/saxs_computation/hw/8hw1/8hw1.fit
pddf	/app/data/pr_computation/hw/8hw1/8hw1.pr.out
profile	/app/data/saxs_computation/hw/8hw1/8hw1.dat