SAXSdb — 9h9r

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1. 结构基本信息 1. Structure Basics

条目编号 entry_id	9h9r
沉积日期 deposition_date	2024-10-31
最后修订 last_revision	2025-01-15
结构标题 title	Full gamma-tubulin ring complex composed of the Candida albicans gamma-tubulin small complex in complex with Spc72 CM1
关键词 keywords	;cytoskeleton, microtubule, microtubule nucleation, complex, template, cap, gamma-tubulin, gamma-tubulin ring complex, gamma-tubulin small complex, Spc72, CM1, CM1 motif, GCP2, GCP3, Spc97, Spc98, Candida, albicans, CELL CYCLE, gamma-TuRC, gamma-TuSC, yeast, fungi ;; CELL CYCLE
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	110.70 Å
零角强度 I(0) i0	41907400000.00
分子量 molecular_weight	1815600.0 kDa
排除体积 excluded_volume	2296200 Å³
包络体积 envelope_volume	4484600 Å³
水化壳体积 shell_volume	337700 Å³
包络直径 envelope_diameter	312.4 Å
壳层 Rg shell_rg	114.70 Å
包络 Rg envelope_rg	100.60 Å
形状 Rg shape_rg	110.70 Å
总 Rg total_rg	110.80 Å
总原子数 total_atoms	128163
残基数 n_residues	15701
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	417.0 Å
Rg (实空间) rg_real	116.10 Å
Rg 误差 (实空间) rg_real_error	3.70 Å
I(0) (实空间) i0_real	4.2070e+10
I(0) 误差 (实空间) i0_real_error	1.1400e+09
Rg (倒空间) rg_reciprocal	115.20 Å
I(0) (倒空间) i0_reciprocal	42370000000.0000
解质量估计 total_estimate	0.8614
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	178.7 Å
偏度 Skewness skewness	0.250
峰度 Kurtosis kurtosis	0.008
角度范围 angular_range	— – 0.0700 Å⁻¹
当前正则化参数 α current_alpha	0.7905
最高正则化参数 α highest_alpha	790600000.0000
实空间数据点数 n_real_points	15
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.659; Stabil: 0.872; Sysdev: 1.000; Positv: 1.000; Valcen: 0.904; Smooth: 0.731

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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	Tubulin gamma chain
分子量 formula_weight	56228.2 kDa
来源方法 src_method	man
拷贝数 entity_count	14

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,B,G,H,M,N,S,T,Y,Z,e,f,k,l
原子数 atom_count	128163

MPGETITLQVGQCGNQVGLQYWQQLATEHGIQSDGSSTPYPKDINDLQLQELNNSGSSPQSYPQQTKPNGKYRNDHPELFFTLSDSNTYTPRSILIDMEPSVIAKSTSALPMFNPRNVHLSNQGNGAANNWINGYKYGTEEEETLLNLIDREVDKCDNLSNFQLFHSVAGGTGSGVGSKMLEVISDRYGHKKLLNTFSIFPSNEDTSDVVVQPYNTILTLKRLIDYSDATFVFHNDSLNRIENILFNNNSNIQHDDNDLFLGANKLIALVSASVSNPLRFPGYMYSSMESIVSNLIPTPDLKFLTSSIAPFSTQKHNYLNEYDMLLELSNDRYKTNRVSGDTSYISMLNYLIGDNLDQREIRKGILKSQQRISFVPWVARSVLVVHGKKSPYLKNTNLEGIQVTNNTSMIDVFTKILKQFDLLIKRKAYLNRYYSSVEEENEVMEMFNESRESVKSIIDEYKACKEITYLDDDDEDDLEDGGGNGNGYNNIDDADMGI

来源 Source

来源生物 organism	Candida albicans
NCBI 分类编号 ncbi_taxonomy_id	5476
宿主生物 host_organism	Spodoptera frugiperda

Entity 2 polymer

描述 description	Spindle pole body component
分子量 formula_weight	104692.7 kDa
来源方法 src_method	man
拷贝数 entity_count	7

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	C,I,O,U,a,g,m

MHHHHHHDYDIPTTENLYFQGAMDPMNTFSSPPNVIREYNDSTYQSPLNSQFHQSPFLQTQSPDYVSLREEEDDNNDKNLDIMSSCIVDSVIYKSQKIAGPLLSQISNLNIQQALIIRELLFTLLGHEGHYIQYSKRYDPTSQISRIEGPDYKIAKNLDISLKVITKKLVKFGKFYSGLKSFIQVFDNNKFGKIVQKFCSEVRKFLSSYQQVLINVEHEFKFNKNFNLNMLDSLLHQEISNEMTHLYQIGIEISRITEERQKMSQAEIMGNFEPTTLANTSMNGINSEPNLYYGKFDCCKGGLLLQVIQERMVYYKGDPTSLDFLTQLFDIVSSDYIGMLNQWLLEGVINDPFDEFMIREKRVPDSFMEIFQSKSEYYWNELFLIKIDGLLNQFQNSTIQSKILNTGKYLNIFKRCTGLHNFESLKEKLTTITSLAAPDLELKIDEFYHRANKMLMKLLFDGYNFPSVVNIFQRLFLFADSFQIDNFIDSTFSELKRGKLKISVSRLQKQYDDIFKEKIENKVGVRPSVYDVLKKNQKLSVTSESLYKVVEELMEKNSDYLISDNNLRGIFHRVASLRDDSRLTISSTADSATENVKDEPTITSVDLTIPLPFPLNLVLNQQLSYQYEIMFKLLINIKFISKYNSSNWQEMNYSKIWTNSHFNSSVKKWILRCRVLHSRICSFIHELENYIVHDVIEHNFEEIKNLIHTTATNLATSELGSDINDEGDNIFNGSLIRGTFNNNSIFDSKVHKHRTTTYVEGISTVEQLIQKFLDYSSTLLNDSLLTREESLRQLRKMLDFIFHFNNYIVQVKKVLVLLNHELFNEYSKEFPTKFEKPMDQESIDKRFANLSDTFLMQYEKFGENLVTFLATIKQVGERENQGLLELSNRLELCFPE

来源 Source

来源生物 organism	Candida albicans
NCBI 分类编号 ncbi_taxonomy_id	5476
宿主生物 host_organism	Spodoptera frugiperda

Entity 3 polymer

描述 description	Spc98p
分子量 formula_weight	95318.4 kDa
来源方法 src_method	man
拷贝数 entity_count	7

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	D,J,P,V,b,h,n

MHHHHHHDYDIPTTENLYFQGAMDPMALNKVQLIKLYSNRLVKSLVPVEFGEAFIQSIINDLQTTLLNTSSEEQNLSIIINKLKMQFLSNNLKNEWVEFQNIVNSLSKFKSLDQICNYLAFLDALRDEKPEDILSTSTASLSPGKQNVMINTVNTALTLSQLIEPYYDTLSEQTILTYLPYTMLGSDSKIFTFSNNYTRLEIPKDINNSFSSLLREVFEFAILYKQLAIVVDRYKGTLVSAIKTAYIAILEAQLNKYVNDINNIFNNKPNSILVVYNSIFPWISILRFLYRVSNRLNRLDGYEFLTFIYSFTNHGDPKIRGIAVTAFTEVVKPYYNIVEHWIVKGELIDNNNEFFIIFDQEQNEFNSIIKLLPKKIPAFIKSSDKIFQIGKTLIFLNKYCRELKWVNQYNVKYSAILFNNHQGLASMTTNEMIKLIDSQYNEILTFLTQIIQGNNKLFTHVYNFKRFYFMETNDFIDAIMVKGKDVFNESSVNISSTYLRKVLQDAIQISSVKNFEYVDRLDSRVLNPQHGNLGWESFTIEYKIDDLPMSYLFEGHQHLQYLKMFHFLWKLRQLNNLLNWHFEMFNELNHNVVTKLSSRNRRPLAKSLSIITSIRFHFTQFLNELIAYLSYDVIEENFQQHIVRKLFYNKNDQDLLLNKSFMNLSEIDPNNDLPKFNVNLLTIDELVELHGTYIDSIINSSLLNEKLKGNETNISYIDQIFNILQTIFNFINTSQEFYSLVCTFGLLVRSDSNANKIELEQDQEDLEFQLHKIKRKIYKDIYQHDYKRQLNDLKNDLNRDYNLKDLSKLL

来源 Source

来源生物 organism	Candida albicans
NCBI 分类编号 ncbi_taxonomy_id	5476
宿主生物 host_organism	Spodoptera frugiperda

Entity 4 polymer

描述 description	Mto2p-binding domain-containing protein
分子量 formula_weight	70622.6 kDa
来源方法 src_method	man
拷贝数 entity_count	14

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	E,F,K,L,Q,R,W,X,c,d,i,j,o,p

MSNLSINESNDNSNVSILSNKSGAQSSTNSSPNLIVFKQPEDLSIQLQQQQQGTQEDTPEEEEEEEEEMEQITQLEVQQENQPDTLSSSPFISRPNSPLDDIIRPQGTSSPSLTIRDSYSSQVDINISNLHKSLNEMRLSTDPVDNNNNNNKVNKNNPTNSDISNDDIITIDNLTPSRIQPKNISPWRQFRPTLRGSPESTPRSLFQNKPNLKFNNGLSPTNGSRDMVTNNIATTTKSREEELNKRIVNYKIQLKLMKNFLQELIDRNNLDPHEFHTLLRRNNNNIMNNENNPLSTSLSQTSTLEIQHQNLQIELDEALELNKQLYNKIETANKEISDKDLQISNYESRINLINYSVDELIYILINEYDKNNYSHGGSNTTSPGKETLQQSISAQLEVKLNVLKLELMTRLDQSHQYNNKPHDLFTPPYTSSEYGVSTNNVANKNDLEGYIHIIEDLIKTVDELELTCENYKANKNELQNQLVEQINESIRIKNNFQIMSNKFNQLRQSLSEKENDKNLDEFSKNNHQQQQQQQIQQLEQKLIEYEKCITILQDELDQYKQPSDTTNTTNNNNNNNNNNNRSSYSSYNNHRNSSLNELNGSGSGSEQKLISEEDL

来源 Source

来源生物 organism	Candida albicans
NCBI 分类编号 ncbi_taxonomy_id	5476
宿主生物 host_organism	Spodoptera frugiperda

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7. 引用文献 (1)

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分辨率 resolution	8.20 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	8261

fit	/app/data/saxs_computation/h9/9h9r/9h9r.fit
pddf	/app/data/pr_computation/h9/9h9r/9h9r.pr.out
profile	/app/data/saxs_computation/h9/9h9r/9h9r.dat

Full gamma-tubulin ring complex composed of the Candida albicans gamma-tubulin small complex in complex with Spc72 CM1

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 (4)

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

Entity 4 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)