8ygv

;F1 domain of Non-catalytic site depleted and epsilon C-terminal domain deleted FoF1-ATPase from Bacillus PS3,nucleotide depleted condition ;

Method: ELECTRON MICROSCOPY D_max: 137.4 Å Quality: GOOD

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	8ygv
沉积日期 deposition_date	2024-02-27
结构标题 title	;F1 domain of Non-catalytic site depleted and epsilon C-terminal domain deleted FoF1-ATPase from Bacillus PS3,nucleotide depleted condition ;
关键词 keywords	Complex, MEMBRANE PROTEIN; MEMBRANE PROTEIN
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	45.45 Å
回转半径 Rg (电子) rg_electron	44.50 Å
零角强度 I(0) i0	1651020000.00
分子量 molecular_weight	341370.0 kDa
排除体积 excluded_volume	429410 Å³
包络体积 envelope_volume	592240 Å³
水化壳体积 shell_volume	104440 Å³
包络直径 envelope_diameter	154.1 Å
壳层 Rg shell_rg	54.46 Å
包络 Rg envelope_rg	43.43 Å
形状 Rg shape_rg	44.51 Å
总 Rg total_rg	44.85 Å
总原子数 total_atoms	24034
残基数 n_residues	3127
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	137.4 Å
Rg (实空间) rg_real	45.08 Å
Rg 误差 (实空间) rg_real_error	0.66 Å
I(0) (实空间) i0_real	1.6510e+09
I(0) 误差 (实空间) i0_real_error	2.8980e+07
Rg (倒空间) rg_reciprocal	45.44 Å
I(0) (倒空间) i0_reciprocal	1652000000.0000
解质量估计 total_estimate	0.8875
解质量评级 solution_quality	GOOD a GOOD solution
P(r) 峰数 n_peaks	2
主峰位置 r_peak_primary	58.9 Å
偏度 Skewness skewness	0.049
峰度 Kurtosis kurtosis	-0.462
角度范围 angular_range	— – 0.1750 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	319500000.0000
实空间数据点数 n_real_points	36
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.904; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.951; Smooth: 0.869

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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 (3)

Entity 1 polymer

描述 description	ATP synthase subunit alpha
分子量 formula_weight	54672.5 kDa
EC 编号 ec_number	7.1.2.2
来源方法 src_method	man
拷贝数 entity_count	3

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,B,C
原子数 atom_count	24034

MSIRAEEISALIKQQIENYESQIQVSDVGTVIQVGDGIARAHGLDNVMSGELVEFANGVMGMALNLEENNVGIVILGPYTGIKEGDEVRRTGRIMEVPVGEALIGRVVNPLGQPVDGLGPVETTETRPIESPAPGVMDRRSVHEPLQTGIKAIDALVPIGRGQRELIIGDRQTGAASVAIDTIINQKDQNMISIYVAIGQKESTVRTVVETLRKHGALDYTIVVTASASQPAPLLFLAPYAGVAMGEYFMYKGKHVLVVYAALSKQAAAYRELSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSDAKGGGSLTALPFVETQAGDISAYIPTNVISITDGQIFLQSDLFFSGVRPAINAGLSVSRVGGAAQIKAMKKVAGTLRLDLAAYRELEAFAQFGSDLDKATQAKLARGARTVEVLKQDLHQPIPVEKQVLIIYALTRGFLDDIPVEDVRRFEKEFYLFLDQNGQHLLEHIRTTKDLPNEDDLNKAIEAFKKTFVVSQ

来源 Source

来源生物 organism	Bacillus sp. PS3
NCBI 分类编号 ncbi_taxonomy_id	2334
宿主生物 host_organism	Escherichia coli K-12

Entity 2 polymer

描述 description	ATP synthase subunit beta
分子量 formula_weight	53424.6 kDa
EC 编号 ec_number	7.1.2.2
来源方法 src_method	man
拷贝数 entity_count	3

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	D,E,F

MHHHHHHHHHHMTRGRVIQVMGPVVDVKFENGHLPAIYNALKIQHKARNENEVDIDLTLEVALHLGDDTVRTIAMASTDGLIRGMEVIDTGAPISVPVGEVTLGRVFNVLGEPIDLEGDIPADARRDPIHRPAPKFEELATEVEILETGIKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVALTGLTMAEYFRDEQGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERITSTAKGSITSIQAIYVPADDYTDPAPATTFSHLDATTNLERKLAEMGIYPAVDPLASTSRALAPEIVGEEHYQVARKVQQTLQRYKELQDIIAILGMDELSDEDKLVVHRARRIQFFLSQNFHVAEQFTGQPGSYVPVKETVRGFKEILEGKYDHLPEDAFRLVGRIEEVVEKAKAMGVEV

来源 Source

来源生物 organism	Bacillus sp. PS3
NCBI 分类编号 ncbi_taxonomy_id	2334
宿主生物 host_organism	Escherichia coli K-12

Entity 3 polymer

描述 description	ATP synthase gamma chain
分子量 formula_weight	31859.5 kDa
来源方法 src_method	man
拷贝数 entity_count	1

聚合体 Polymer

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

MASLRDIKTRINATKKTSQITKAMEMVSTSKLNRAEQNAKSFVPYMEKIQEVVANVALGAGGASHPMLVSRPVKKTGYLVITSDRGLAGAYNSNVLRLVYQTIQKRHASPDEYAIIVIGRVGLSFFRKRNMPVILDITRLPDQPSFADIKEIARKTVGLFADGTFDELYMYYNHYVSAIQQEVTERKLLPLTDLAENKQRTVYEFEPSQEEILDVLLPQYAESLIYGALLDAKASEHAARMTAMKNATDNANELIRTLTLSYNRARQAAITQEITEIVAGANALQ

来源 Source

来源生物 organism	Bacillus sp. PS3
NCBI 分类编号 ncbi_taxonomy_id	2334
宿主生物 host_organism	Escherichia coli K-12

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7. 引用文献 (1)

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分辨率 resolution	3.30 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	66532

fit	/app/data/saxs_computation/yg/8ygv/8ygv.fit
pddf	/app/data/pr_computation/yg/8ygv/8ygv.pr.out
profile	/app/data/saxs_computation/yg/8ygv/8ygv.dat

;F1 domain of Non-catalytic site depleted and epsilon C-terminal domain deleted FoF1-ATPase from Bacillus PS3,nucleotide depleted condition ;

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 (3)

Entity 1 polymer

聚合体 Polymer

来源 Source

Entity 2 polymer

聚合体 Polymer

来源 Source

Entity 3 polymer

聚合体 Polymer

来源 Source

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)