8wa2

cryo-EM structure of native mastigonemes isolated from Chlamydomonas reinhardtii at 3.0 angstrom resolution

Method: ELECTRON MICROSCOPY D_max: 403.1 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	8wa2
沉积日期 deposition_date	2023-09-06
结构标题 title	cryo-EM structure of native mastigonemes isolated from Chlamydomonas reinhardtii at 3.0 angstrom resolution
关键词 keywords	Cilia, arabinoglycan, PKD2, PPII helix, mechanosensation., 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	— Å
回转半径 Rg (电子) rg_electron	147.30 Å
零角强度 I(0) i0	20984200000.00
分子量 molecular_weight	1222200.0 kDa
排除体积 excluded_volume	1522600 Å³
包络体积 envelope_volume	2976500 Å³
水化壳体积 shell_volume	209950 Å³
包络直径 envelope_diameter	539.5 Å
壳层 Rg shell_rg	80.00 Å
包络 Rg envelope_rg	146.80 Å
形状 Rg shape_rg	147.40 Å
总 Rg total_rg	146.60 Å
总原子数 total_atoms	85288
残基数 n_residues	9536
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	403.1 Å
Rg (实空间) rg_real	132.80 Å
Rg 误差 (实空间) rg_real_error	2.96 Å
I(0) (实空间) i0_real	2.0150e+10
I(0) 误差 (实空间) i0_real_error	5.0620e+08
Rg (倒空间) rg_reciprocal	104.50 Å
I(0) (倒空间) i0_reciprocal	18580000000.0000
解质量估计 total_estimate	0.8485
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	80.6 Å
偏度 Skewness skewness	0.485
峰度 Kurtosis kurtosis	-0.777
角度范围 angular_range	— – 0.0500 Å⁻¹
当前正则化参数 α current_alpha	0.7075
最高正则化参数 α highest_alpha	309000000.0000
实空间数据点数 n_real_points	11
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.050; Oscil: 0.712; Stabil: 0.978; Sysdev: 1.000; Positv: 1.000; Valcen: 0.920; Smooth: 0.043

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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 (28)

Entity 1 polymer

描述 description	Mst1
分子量 formula_weight	206316.2 kDa
来源方法 src_method	nat
拷贝数 entity_count	6

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,B,C,D,E,F
原子数 atom_count	85288

MAMPRHGRRPARCSSNRASQWLLLVLGVALAASPRFLLLVEAATYTLTLDKLGPTVNPTTSDAVTFTATVASPDSTTAVFFTLDYGDGVTAETTRTTTGALSTTPTANLVSAGTYTVTYASIGTKFVTLRLYDSAVAPGVLLASKTVPIYVEDSTLTATLLQSGVPRLNLAFSGFKGRVSSSTANRADMWATIQLDTAPGVFESSRIFIGIAPTASTNYDFVIPDQVYNLEGAKTTVLRIYDAPVGGTLLRTFTPAAANAVYVVDPSKYVLTLTVGPTSVTTADQVTFTQTTTEVSYSASATSPILQWRFNWDDPSVVETPLAYPDALTAASNFPTTATAVSSAAASTFRYTSTGSKNARLRLYDGANNVIAEKIVVITVSNAGYTLALAKTTADPVTTDDTIAFSAGAKHLSSTSQVWWTIDYGAGESSPRTALTMTNVGAAAPNAIASLSNQYTSGGTKLATLRIYDRDGVGANTGLLLASTTVTFTVTPVLYALESAVEPFSPIATVAAKWSFRIQRSKATPAGVTESIKCAFFGADTGTAPADLAAWLTAANGAGGLTATILPSSIPSDIISFTRTYAAAAASLQGKLQCFIGSTPLWDPYYPTPVFQVLAAAPTYTLSASVTPAVVPVDTATLWTYNIIRSVPVPAGGPSLPILCSFWDGKTGAAPTTDAGWAALAGSANGKGTSMAPGSTTATCSFTPSYSTTGTATPTLQLIQNSFALDAATTVGFLSPVYTAPAFATVTAASYTISSYLNPVTPVAGGAAAVWRIVITRNAAVTASAKTLTCQMPDNGQGGSPADVTADIAVGGTTTVCVFSIAGYTTATPGPYFATVNVVDGAVTTSHITKNFTVLASGTTAPTYAVTSVVSPATPVKVSTPVTYTFTITRTTAVPAGGIPQPIICEFFNGEGTAPASAAAYWRVSTTIPDADTVVAVMAPGETTTTCTFTTYYTTVSAGGFTAKLMVFGESATAAPLLTSLSVTPSQLLAAVHSFATPMVVAAAVVAVESTTISPNYNPTTPYTNIPTYFTFTLLRDPPVPPSASSGVQFACALYTGQNVNPASAPSAITDAVYKTFTDVTTAVATDANYFADQQLRVVTMAPGTGRVSCTFPTLYAAAGPFSPKFFVFEYASSTVGANALAVADTVTSLTSFTTQAAPTFITGPTNVPQRVPLPKGFRTTCFDGYELIFSNDNYTNGVRVAVDAYPYPVGQCRKCPGGTATMDGYRCIPCPSGYWSNEGARECTACPAGTIAKPAALTARAKYSIDPTTYHFVTHLAMGPESCKKCPKGYFQPNIAGTVCLPCPSGFVSTSGATGCTACSEGTYHTDGVGTTTPGEATSLDTTDTFGSIYPIIPNTCRQCPANTYLPLRGQAAIASMNLAAVSSATPCRPCEDGTWSKAGAAGCQKCPPGTYRNTWFSGQLGSPFITADGVPVATTLTELGSGCSQCPPGTYAPTFGMSVCLPCPAGTFASAPGATACQQCKPGTNSLMGDRTQQMALVVTNAANDFPALRAYTISGMVAGPAYAKPIVTGPDTNFFMAGKSETCSTNLPGYYTDVDGLPIQLPCKPGTFMPFDTATANLLDTGLTVDGTQCYTCQTGTFNDEFSQPVCKACWSGSFASKRGLPTCEIAQPGTFTNVAAAANATFNTATLIPTGLVKGAQAPTPCGMGYFQSSAETTTCTACAVGTYADQAGLAACKPCQPGRYQNSIGQRVCKPCDMGTYSRYGGELCTKCPAGTVASKTGSSQCTPCAAGFYANAPDSATSCRACPRGYYGPYSGAYADNLGDEFEGPRGCYKCPYDFFADRPGVRQCTACPPLDLGGGNLVEQCTEDLGSQRCKPCSLLSKPKTARTEQSPPPPSPSPPPPPPPSPRPPSPNPPSPRPPSPAPPSPNPPPTSPPPSPPPSPPPPRPPPPPPPPPSPPPPNRSPPPPPPASSAINPGGGVNQNGDPVGHRRAILSLMEDEDAEAAQEEQAIVDVDAEMQPQDDE

Entity 2 polymer

描述 description	Mstax
分子量 formula_weight	6239.5 kDa
来源方法 src_method	syn
拷贝数 entity_count	3

聚合体 Polymer

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

PPPPPPPPPPPGTPDQPAAPAAPAAPAAPAAPPPALPGAPPPPPPPPPPPPPGVPPAAAAAAAA

Entity 3 branched

描述 description	beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose
分子量 formula_weight	414.4 kDa
来源方法 src_method	syn
拷贝数 entity_count	95

Entity 4 branched

描述 description	alpha-L-arabinofuranose-(1-3)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose
分子量 formula_weight	546.5 kDa
来源方法 src_method	syn
拷贝数 entity_count	43

Entity 5 branched

描述 description	;alpha-L-arabinofuranose-(1-3)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-[alpha-L-arabinofuranose-(1-5)]beta-L-arabinofuranose ;
分子量 formula_weight	678.6 kDa
来源方法 src_method	syn
拷贝数 entity_count	4

Entity 6 branched

描述 description	beta-D-galactofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose
分子量 formula_weight	444.4 kDa
来源方法 src_method	syn
拷贝数 entity_count	48

Entity 7 branched

描述 description	beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-[alpha-L-arabinofuranose-(1-3)]beta-L-arabinofuranose
分子量 formula_weight	546.5 kDa
来源方法 src_method	syn
拷贝数 entity_count	12

Entity 8 branched

描述 description	;alpha-L-arabinofuranose-(1-2)-alpha-L-arabinofuranose-(1-3)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose ;
分子量 formula_weight	678.6 kDa
来源方法 src_method	syn
拷贝数 entity_count	4

Entity 9 branched

描述 description	beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose
分子量 formula_weight	282.2 kDa
来源方法 src_method	syn
拷贝数 entity_count	8

Entity 10 branched

描述 description	;alpha-L-arabinofuranose-(1-3)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-[alpha-L-arabinofuranose-(1-3)]beta-L-arabinofuranose ;
分子量 formula_weight	678.6 kDa
来源方法 src_method	syn
拷贝数 entity_count	16

Entity 11 branched

描述 description	alpha-L-arabinofuranose-(1-3)-[alpha-L-arabinofuranose-(1-5)]beta-L-arabinofuranose
分子量 formula_weight	414.4 kDa
来源方法 src_method	syn
拷贝数 entity_count	4

Entity 12 branched

描述 description	;alpha-L-arabinofuranose-(1-3)-beta-D-galactofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-[alpha-L-arabinofuranose-(1-3)]beta-L-arabinofuranose ;
分子量 formula_weight	708.6 kDa
来源方法 src_method	syn
拷贝数 entity_count	12

Entity 13 branched

描述 description	alpha-L-arabinofuranose-(1-3)-beta-D-galactofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose
分子量 formula_weight	576.5 kDa
来源方法 src_method	syn
拷贝数 entity_count	30

Entity 14 branched

描述 description	beta-L-arabinofuranose-(1-5)-beta-D-galactofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose
分子量 formula_weight	576.5 kDa
来源方法 src_method	syn
拷贝数 entity_count	12

Entity 15 branched

描述 description	;alpha-L-arabinofuranose-(1-2)-alpha-L-arabinofuranose-(1-3)-beta-D-galactofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose ;
分子量 formula_weight	708.6 kDa
来源方法 src_method	syn
拷贝数 entity_count	12

Entity 16 branched

描述 description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
分子量 formula_weight	424.4 kDa
来源方法 src_method	syn
拷贝数 entity_count	3

Entity 17 branched

描述 description	;alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
分子量 formula_weight	1073.0 kDa
来源方法 src_method	syn
拷贝数 entity_count	4

Entity 18 branched

描述 description	;beta-D-galactofuranose-(1-2)-[alpha-L-arabinofuranose-(1-5)]beta-L-arabinofuranose-(1-2)-[alpha-L-arabinofuranose-(1-3)]beta-L-arabinofuranose ;
分子量 formula_weight	708.6 kDa
来源方法 src_method	syn
拷贝数 entity_count	16

Entity 19 branched

描述 description	beta-D-galactofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-[alpha-L-arabinofuranose-(1-3)]beta-L-arabinofuranose
分子量 formula_weight	576.5 kDa
来源方法 src_method	syn
拷贝数 entity_count	6

Entity 20 branched

描述 description	beta-D-galactofuranose-(1-2)-[alpha-L-arabinofuranose-(1-5)]beta-L-arabinofuranose-(1-2)-beta-L-arabinofuranose
分子量 formula_weight	576.5 kDa
来源方法 src_method	syn
拷贝数 entity_count	12

Entity 21 branched

描述 description	;beta-D-galactofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-[alpha-L-arabinofuranose-(1-3)][alpha-L-arabinofuranose-(1-5)]beta-L-arabinofuranose ;
分子量 formula_weight	708.6 kDa
来源方法 src_method	syn
拷贝数 entity_count	3

Entity 22 branched

描述 description	;beta-D-galactofuranose-(1-2)-[alpha-L-arabinofuranose-(1-5)]beta-L-arabinofuranose-(1-2)-[alpha-L-arabinofuranose-(1-2)-alpha-L-arabinofuranose-(1-3)]beta-L-arabinofuranose ;
分子量 formula_weight	840.7 kDa
来源方法 src_method	syn
拷贝数 entity_count	8

Entity 23 branched

描述 description	;beta-D-galactofuranose-(1-2)-[alpha-L-arabinofuranose-(1-5)]beta-L-arabinofuranose-(1-2)-[alpha-L-arabinofuranose-(1-3)][alpha-L-arabinofuranose-(1-5)]beta-L-arabinofuranose ;
分子量 formula_weight	840.7 kDa
来源方法 src_method	syn
拷贝数 entity_count	1

Entity 24 branched

描述 description	;beta-D-galactofuranose-(1-2)-beta-L-arabinofuranose-(1-2)-[alpha-L-arabinofuranose-(1-2)-alpha-L-arabinofuranose-(1-3)][alpha-L-arabinofuranose-(1-5)]beta-L-arabinofuranose ;
分子量 formula_weight	840.7 kDa
来源方法 src_method	syn
拷贝数 entity_count	2

Entity 25 non-polymer

描述 description	CALCIUM ION
分子量 formula_weight	40.1 kDa
来源方法 src_method	syn
拷贝数 entity_count	6

Entity 26 non-polymer

描述 description	alpha-L-arabinofuranose
分子量 formula_weight	150.1 kDa
来源方法 src_method	syn
拷贝数 entity_count	20

Entity 27 non-polymer

描述 description	alpha-D-galactopyranose
分子量 formula_weight	180.2 kDa
来源方法 src_method	syn
拷贝数 entity_count	62

Entity 28 non-polymer

描述 description	2-acetamido-2-deoxy-beta-D-glucopyranose
分子量 formula_weight	221.2 kDa
来源方法 src_method	syn
拷贝数 entity_count	7

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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	—

分辨率 resolution	3.00 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	69065

fit	/app/data/saxs_computation/wa/8wa2/8wa2.fit
pddf	/app/data/pr_computation/wa/8wa2/8wa2.pr.out
profile	/app/data/saxs_computation/wa/8wa2/8wa2.dat

cryo-EM structure of native mastigonemes isolated from Chlamydomonas reinhardtii at 3.0 angstrom resolution

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

晶胞参数 Unit Cell

对称性 Symmetry

冷冻电镜 EM 3D

5. 实体与聚合体信息 (28)

Entity 1 polymer

聚合体 Polymer

Entity 2 polymer

聚合体 Polymer

Entity 3 branched

Entity 4 branched

Entity 5 branched

Entity 6 branched

Entity 7 branched

Entity 8 branched

Entity 9 branched

Entity 10 branched

Entity 11 branched

Entity 12 branched

Entity 13 branched

Entity 14 branched

Entity 15 branched

Entity 16 branched

Entity 17 branched

Entity 18 branched

Entity 19 branched

Entity 20 branched

Entity 21 branched

Entity 22 branched

Entity 23 branched

Entity 24 branched

Entity 25 non-polymer

Entity 26 non-polymer

Entity 27 non-polymer

Entity 28 non-polymer

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)