8rbt

;Emiliania huxleyi virus 201 (EhV-201) capsid proteins predicted by AlphaFold2 fitted into a cryo-EM density map of the EhV-201 virion capsid. ;

Method: ELECTRON MICROSCOPY D_max: 260.5 Å Quality: EXCELLENT

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	8rbt
沉积日期 deposition_date	2023-12-04
结构标题 title	;Emiliania huxleyi virus 201 (EhV-201) capsid proteins predicted by AlphaFold2 fitted into a cryo-EM density map of the EhV-201 virion capsid. ;
关键词 keywords	cryo-EM, subtomogram averaging, EhV-201, enveloped virus, capsid, major capsid protein, VIRUS; VIRUS
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	87.52 Å
回转半径 Rg (电子) rg_electron	89.03 Å
零角强度 I(0) i0	10049200000.00
分子量 molecular_weight	522460.0 kDa
排除体积 excluded_volume	513000 Å³
包络体积 envelope_volume	1789200 Å³
水化壳体积 shell_volume	179780 Å³
包络直径 envelope_diameter	327.0 Å
壳层 Rg shell_rg	74.54 Å
包络 Rg envelope_rg	91.79 Å
形状 Rg shape_rg	89.02 Å
总 Rg total_rg	88.88 Å
总原子数 total_atoms	37285
残基数 n_residues	9321
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	260.5 Å
Rg (实空间) rg_real	82.59 Å
Rg 误差 (实空间) rg_real_error	1.40 Å
I(0) (实空间) i0_real	9.6840e+09
I(0) 误差 (实空间) i0_real_error	1.9110e+08
Rg (倒空间) rg_reciprocal	83.32 Å
I(0) (倒空间) i0_reciprocal	9926000000.0000
解质量估计 total_estimate	0.9023
解质量评级 solution_quality	EXCELLENT a EXCELLENT solution
P(r) 峰数 n_peaks	2
主峰位置 r_peak_primary	86.8 Å
偏度 Skewness skewness	0.423
峰度 Kurtosis kurtosis	-0.365
角度范围 angular_range	— – 0.0900 Å⁻¹
当前正则化参数 α current_alpha	0.6185
最高正则化参数 α highest_alpha	809100000.0000
实空间数据点数 n_real_points	19
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.001; Oscil: 0.927; Stabil: 0.976; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.026

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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 (2)

Entity 1 polymer

描述 description	Major capsid protein
分子量 formula_weight	55145.8 kDa
来源方法 src_method	nat
拷贝数 entity_count	18

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,L,M,N,O,P,Q,R
原子数 atom_count	37285

MSGFGGGSSGAGSLTQLLATGSMDAALTQNATRTFWKSSYQKHSLFALESINQPFTTQVQFGAESHITVNRQGDLLSWMYLKIVLPGLKVQNQADTVQPTQQSFASLDNDVAAQADVSHVLPYIEGAYTEASLNTKEQLIAEAKNSYEAAKYNAAPLPVAAQMQSTEMPDFDYAYWTEAIGFHLIKRAEFKVGGATIDTIWSELLFAMEELMGRAGRRLTETIGRTLRRPTELMKASRQEQILYVPLPWYFTKHPSLAFPLVAATYHNIQLWVQWAQLNSCIIKSRSNLVVLHAERNVPISDDHLRASLECTYVHLEAAERDALTANAGTQLIVQHQAHLQQVSSNNVTARLNFNFPVLEFYYFLRRKANKDAGDHFNFSGIGGRDPVVSAELLFNNTARVTQKPAVWWRAVQALQFHSSAPLTNIYSYSFSLSPEDPITPSGSANFSRLDSVELALTLQDDFGAAHDANSELFVFARSYNILKFTNGLAGLLYSN

Entity 2 polymer

描述 description	Penton protein
分子量 formula_weight	72841.3 kDa
来源方法 src_method	nat
拷贝数 entity_count	1

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	S

MPSIAFSGISTKPGELEFHVPSVLSKHNRAGLLKSIDFPYSQRTIESSWNKLHYMESIRITPESRSVSVLLTDKESGDRVEMLAMVPLTTNKIIEISTATTDGTIILVTEEPHGFFAPGCFGKEVRNVISSYKSIFPHGTPPFILIHGSNGSVQVDPALFEYNDEYSVKIKYTAIRTEFKLFGKGDHGWMVTPEFPTISMLCQVITNAMNSAIIFNHDDPAARTRMYPGTCSNTHVIESVSGDSLAKALLGYDGVYAGWEEITIPAGMYCYGELDLSKMIAAKMNRWHIDRESSIIFRGVSGYTWNVTLPSGNYGTPEKLAHCIQHMMNMTAKNRKNPYCVRFTLNEGSSHRGKFVFVAAEPFDLLFGDDESIDPSILGFEPVDHIGRNSYMSENDLGAPLMKPNCNVYDVDEIPGTHQIRIGRRTRLAVDGKIRGYSGGTLRLNTVNRTTGAPKCHGMNKGDVVTLTTVMPAPDGATGTKREGFTFRAKNKIMGVVVADENENPDASSLHVSVPSMSWTLGIGSYITIDSQAAPISVALFDPGKNQFFRDSIGASRLGFSNGVSTGQHGVVVSQCAVNLEPRTVDVSFIEGSMTSASTEMYNQNGKSLITQVPSDRSSGPVPQGMVRFNNALQQFKLEFTNPDGSPYHFNHASLSLLMEFDD

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7. 引用文献 (1)

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分辨率 resolution	12.00 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	2880

fit	/app/data/saxs_computation/rb/8rbt/8rbt.fit
pddf	/app/data/pr_computation/rb/8rbt/8rbt.pr.out
profile	/app/data/saxs_computation/rb/8rbt/8rbt.dat

;Emiliania huxleyi virus 201 (EhV-201) capsid proteins predicted by AlphaFold2 fitted into a cryo-EM density map of the EhV-201 virion capsid. ;

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

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

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

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

冷冻电镜 EM 3D

5. 实体与聚合体信息 (2)

Entity 1 polymer

聚合体 Polymer

Entity 2 polymer

聚合体 Polymer

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)