SAXSdb — 9occ

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1. 结构基本信息 1. Structure Basics

条目编号 entry_id	9occ
沉积日期 deposition_date	2025-04-24
结构标题 title	Sf11 bacteriophage tail
关键词 keywords	Sf11, bacteriophage, 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	58.32 Å
回转半径 Rg (电子) rg_electron	59.89 Å
零角强度 I(0) i0	665445000.00
分子量 molecular_weight	211480.0 kDa
排除体积 excluded_volume	263230 Å³
包络体积 envelope_volume	401270 Å³
水化壳体积 shell_volume	64445 Å³
包络直径 envelope_diameter	220.3 Å
壳层 Rg shell_rg	50.22 Å
包络 Rg envelope_rg	60.29 Å
形状 Rg shape_rg	59.92 Å
总 Rg total_rg	59.45 Å
总原子数 total_atoms	14930
残基数 n_residues	1889
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	202.2 Å
Rg (实空间) rg_real	59.48 Å
Rg 误差 (实空间) rg_real_error	2.11 Å
I(0) (实空间) i0_real	6.6530e+08
I(0) 误差 (实空间) i0_real_error	1.3600e+07
Rg (倒空间) rg_reciprocal	57.34 Å
I(0) (倒空间) i0_reciprocal	663200000.0000
解质量估计 total_estimate	0.7734
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	52.4 Å
偏度 Skewness skewness	0.780
峰度 Kurtosis kurtosis	0.111
角度范围 angular_range	— – 0.1350 Å⁻¹
当前正则化参数 α current_alpha	0.0002
最高正则化参数 α highest_alpha	24830000.0000
实空间数据点数 n_real_points	28
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.688; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.665; Smooth: 0.322

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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 (6)

Entity 1 polymer

描述 description	Putative neck whiskers protein gp24
分子量 formula_weight	25037.7 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	A,B
原子数 atom_count	14930

MAICANDKGVLVGRMTRLFLAEGCGDAVPDAGDWKYLGSTTSKGVDYSPQTTTSEADTAGGFVSTLVTSSDMTISAEVEIRKNDPSDEFGFHRLVEIYATELKARRQPSLWVRQVTGATIVTAYCNITSISYEGGTNDIVTGSLEFKVYDSDSVTVESLEPLAFTTDLQSTGSTGTPLTVAVEGGVAPYTYVWRKDGVVVGSESGATLASPTAGVYTVTVTDSSTDPEVIISTACTVS

Entity 2 polymer

描述 description	Tail fiber protein gp17
分子量 formula_weight	50176.4 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

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

MAIIKYPDWIPLAQRASKNLTQQTPFRSDQPAVGAPIFQKLTTDIVATWSLTWVFTLAEERAFIQWLRSSRYLNKCNNWFTMMIDLGGSGLQEQTLHFTDYPVQTSIDGGVVTWTGNVIAKKLNNTMDEFDDVLVELDYRWYGWLDEVVNRELPQVYMTPILHMPINMLSSTLDSRIVYDGPQVYYINRNGNLVQSAANEWPLTFIDGVAVGRVPPENTSKNVILYNTNLTNVVWARTRMSITPSPQTGMLVNGCFKLTPTTDSNTHLVAQLPVFEILEGEVCTFSVIAKADGYRNVRIRIANNAVFVADVTVNLLSGVIIGGSANSSIENLGGGWFRFSEIVTPTEGGYSAIAMQIWVHDDSNSATFAGDGVSGILVCAPQSDSTGASMSPIATEASPVTRPTASAKVVMNGATSIDITYSDSSTINVPAVDNYAVIPQADSAWGSKYITTIKFNV

Entity 3 polymer

描述 description	Putative tail protein gp14
分子量 formula_weight	92301.9 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	E

MPVIHVQKMPGTPKETGIVPAGTNLWKWLNKSNLPASISITVNGRVLGEDDELSFCLRDGDVVNVYCQPSGAIGDLIGAILKPVTKIFSFLTPKVSTPKTDTSSKTSPNTSLKAQTNIARNGEARPDNFGQIRAFPDLLQESLFEYINNIKYVTEFMNFGLGKYDVSSVRYSESNLGSLAGASYTIYQPGEVIPVVYEPYAFDDVDGQELYGPNELDTDPPPVVIETATTTTVTETEFAGGQIAVKIPKDPAFNYFVDLTMPHDVVFKLNITYAQGGGASVTENVTLSGRLVSATETDDGGLPPANYWYTFIINSINYSGAPISSLSGVTINNTYFNLTDNQPIVSGPYFSPIDGDQLWVHLQHQTNDGNDFSVLIEWWKIDDDNVQIPGTYQSMNYYRDVDRNDTFYYTIKLTPSAGTGRYAIQMRRTNNSSDTSILQLEEIHSIVTRTNVSYSDDTVVKVVVRATENATGSRDRKYNALITRHTIGYNRDAGTVRYTLAPSRSFADAVLHNWLITAGNPENTIDIVRLYEIADSLPDERLGYFDYTFDDEDKSIGERLQTICDAARVTAFWDDGVMSFSRDEKRDYPATVFNTRNTQSDGYKLSYDISLPGTYDGVNVEYRDPTTNKQANVYYRITDSGIVEGEPTKAKKFDMLYVRNRYQAVDRAILECRRLIYSRRSMEIKALADGEWVNVGDMIQVVDMYDDVQQTGVIEARNGNTFTTSEQLTADDNLYVVITSSDGSVSGRLPATVTGLHTFTCNLPSDFQLNIWDGTSVQSESRYVLSTEKELDTTLWVVSQKNPGSDGTTTLTMSEYSDEMYEYVISSS

Entity 4 polymer

描述 description	gp16
分子量 formula_weight	17654.1 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	F

MPSLRDYKAKRPNWALFDTITFYHSSFGYVRLVANVLDEMVLGGETYSPVRMDITQSQQSNTPAINATVKFARLANDFKQYLKLWTGSGRIEPISALYQRFEETDTNTPLKPYRLYVSDVAMDGSDVTVALSIKNPIKGNVAKLYDIAQFPGLRNV

Entity 5 polymer

描述 description	Putative tail protein gp13
分子量 formula_weight	61979.0 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	G,H,I,J,K,L

MATVPTNNPIPSEDPRDLKFNAGKIDEVVNSDAHYYTDRFGKQRWTMAGFQKTTQDAIRSYGYITMDGFEDGATLTLPNQVLRYEATGEYYRWDGDFPKTVSSGSTPETAGGVGSGAWLSVGDGSLRADLSSTDDGRGCSLIGTSDGSNVQEALDDINNTIYQDPLTKWPLGGTLKIKQGVYDVSSALTLDYGNYDATFIGSPGVRAHYVGENMAETIFNCQVADFNLKMLGDTVGATQRVHAYDYLGNITLKGSATSYGLLVTKKAYTKLENIVSYGHTNGEGLRTDSVLTAELDNVYLQSNRIGWRVLNTGDESELNAITVNRLTASQNTQWGILGDRWGAGTTINSLTCEGNGTQGDSGTGGMQIAVNGLNGSCALVLNNPYFEANAGGSDLAIDNTGTRPVTVIINGGNFHRVSSTAYTVNNLSITSSGGGKVTVILNGTTFQSVGSYVPSSARPYWVTGANCEVIDIGCTFMEQTSKATSVSSGSIPRSGRINSNGSIDVAPGVSSVNMVTTGVYDVTFSQQLSTSANGYVVQITPISAPDSVSCDVIYSSTTSFRVTLRNTVSGAGIASAFAFSVTRLV

Entity 6 polymer

描述 description	Tail tape measure protein gp18
分子量 formula_weight	82248.1 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	M

MAEEVGGIVYEVGMDVKGLKAGATTANKTLDDLESSLNKTTGEFNKLDKGARNAGSGMKNAGGAASGLKTSMSMLAGAISVSLIIEWGKRFLEVADNMTQLQARIARLSTDAKTANETFSSLANIASTTGASLSDTTKLWETLTSSLKEAGATNAQVLNLTDTLQKIGRIGGSSTEEMANALRQFGQSIASGTIRAEEFNSILEQMPELARQIAAGLGISMGELRARMLDGKLTAEDALNAIQDRTSVVNAEFEKLPRTMDQAVGSLEVSFSKLVVAVNDATGASKTAVEIIDQLAKYIDFLGDKSTSTSDKILSLATVISKLNPGAWAQMGVDALFGDDDIEKQKQYNDQVERFVKASAEGYEQTKKQAEATKHLKIAQAPTKDKKGKGKGKSAEERQAESVAEKLEKLRQQTMLNATSTGELSREQAILNAQQSLGKAATQEQIKLAGEYAAKIWDQKNALKEQAAAEKERIDAVKGYSALKSKASPMFAVETSYQKDMADLDAYAKAYPQKMAEIQQTRATIEEQYRQQRMDAMWQEWSQQNAATQAAAAAFDAFGQTAGNALTGILTGSMSVSEALRSIGSNILSSVINAFVQMGIQWAQSVIMGQAGMAAASAATIAQAAAISAAMAPAAAMTSLATAGTNSAPAMAGMSATVGLAKTLSIAGALKNGGPAQEGSMYRVGENNLPEIFQASNGHQYMIPGDSGRVISNKDLTGGGGGVVVYNNVINNSSAQVSSSARDNGDGSVTIETIISDIENNGPIGQSISRNYSANRRATE

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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	3.20 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	35748

fit	/app/data/saxs_computation/oc/9occ/9occ.fit
pddf	/app/data/pr_computation/oc/9occ/9occ.pr.out
profile	/app/data/saxs_computation/oc/9occ/9occ.dat

Sf11 bacteriophage tail

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 (6)

Entity 1 polymer

聚合体 Polymer

Entity 2 polymer

聚合体 Polymer

Entity 3 polymer

聚合体 Polymer

Entity 4 polymer

聚合体 Polymer

Entity 5 polymer

聚合体 Polymer

Entity 6 polymer

聚合体 Polymer

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)