8kea

Cyanophage A-1(L) baseplate-initiators

Method: ELECTRON MICROSCOPY D_max: 236.4 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	8kea
沉积日期 deposition_date	2023-08-11
最后修订 last_revision	2024-04-10
结构标题 title	Cyanophage A-1(L) baseplate-initiators
关键词 keywords	baseplate, virus, viral protein; VIRAL 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	72.13 Å
回转半径 Rg (电子) rg_electron	71.84 Å
零角强度 I(0) i0	25049000000.00
分子量 molecular_weight	1377600.0 kDa
排除体积 excluded_volume	1735000 Å³
包络体积 envelope_volume	2543800 Å³
水化壳体积 shell_volume	271080 Å³
包络直径 envelope_diameter	244.0 Å
壳层 Rg shell_rg	86.09 Å
包络 Rg envelope_rg	70.43 Å
形状 Rg shape_rg	71.86 Å
总 Rg total_rg	71.92 Å
总原子数 total_atoms	97165
残基数 n_residues	12456
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	236.4 Å
Rg (实空间) rg_real	71.80 Å
Rg 误差 (实空间) rg_real_error	1.29 Å
I(0) (实空间) i0_real	2.5050e+10
I(0) 误差 (实空间) i0_real_error	5.4240e+08
Rg (倒空间) rg_reciprocal	73.21 Å
I(0) (倒空间) i0_reciprocal	25120000000.0000
解质量估计 total_estimate	0.8543
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	225.7 Å
偏度 Skewness skewness	0.123
峰度 Kurtosis kurtosis	-0.452
角度范围 angular_range	— – 0.1100 Å⁻¹
当前正则化参数 α current_alpha	0.0009
最高正则化参数 α highest_alpha	8781000000.0000
实空间数据点数 n_real_points	23
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.805; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.911; Smooth: 0.776

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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 (8)

Entity 1 polymer

描述 description	hub
分子量 formula_weight	98390.6 kDa
来源方法 src_method	nat
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	97165

MQDPIIKILIGNDTFLLGQEIIDLDFQIGEGKKQNNINFTIFDKDGFFADKYISTSYAQGGIDLPIDFLENPDDAKDTNSASTATEVDSVGNGTVSRSGVFTPKIRAFLDTIASKETAPGTALNIEGYRSVSGSSTLFDESEMVAGGFPRSQGSKNIGRYQFTVIDYNHARSKYPNINNYSPQNQDLLAYFKLQHRNVLPYLLRDDLDNAIDKASYEWASFPGIGKPQGQFNQVQSGTTIASLKSYYETRLAYYRSLEAGSDFQASAPKDTTNNQYAGKEYKTIRTLSNSTTASFYGYNDGFDSSDLTANGERFNPEGITAAHESLPFGTLVKVTWAVNNKSVVVRINDRGAFVRLGRQIDLSYGAAKALSSPGNDAIAAGLLTVKLEVVELRTPIGENLKESAKNQIAENLEKIKKNQKELATPEISAKGTQITLEVSIDRSAIAVFSFLHTGTKHNAIISDTTTFTGQSVNWVLNRRVKNTRYTGVTLKGLAATITRQYGLDLDMSEEGEMIENISQVSQTDWQFLEKMTAIQGFGMRTVGKVLQIYKITVNAKKLNYTISVVDNVKSLIVTDQAQTDATGSSQKIEHYGGRMTTVVDADSGSLIKVDKDNKREAGSAARTFTTGVDVPQPQIQKQYSNPRPEGASVKEFQLQLELHTSQSDLENLTPDTALYIENTLPFIVGKSWFIESVRHSFSEGIFTSQVSAYIPVAPKAIATDSGEQNSVVFDNSQSASQGVGKLPVYEILSYRSGRTVKKITSLQQSYEHWRGTGGYTAYKQLSGFSSPVSYMKGRPNQLVYDFILQQNGNQSCPVPSPASGRVVATGGSNGMVKIDTGGGEVRLLHMSNIRVKPGQNVIRGTILGTQASVGGTSTGTHLHIEANQFILESYVQSLVTGNW

Entity 2 polymer

描述 description	central spike
分子量 formula_weight	29607.1 kDa
来源方法 src_method	nat
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

MIVDEFSSVYECLLYCYKMVKRSEQLNGRRVFPILSVVTNNNDPEGRRRVKIADPLFGNLIESNWIRPIRVSQNQDNPLPQINQMVIVWFVDGDSEKGYYLPIINDANPSREKDDPVNDSAVRIEGNNTIRIDKNDSETVGGNQTVAIAGEQNINVDGNLIENIGGDIDQNVTGKIEVRSESTILIDADGTIIIKNDSGAFISLGGNGEVLIQDSQGRKIRLGGAFNSTWDLNGLPMAFINATSVTIAGKQIATVGAVDTRGDTIVNKGW

Entity 3 polymer

描述 description	tmp
分子量 formula_weight	73969.2 kDa
来源方法 src_method	nat
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

MANRQHVISVDLRLLTGNFDSSLNYIQGRLNGVFGVVSDNATNSFFGNGGFLSSYLWNQAFNAIQMAGIAAFRAIGNEVKRAISYQDNLISMATSYKGLLNLTTKEAFGLARESNIIFQQRNVGLPTFGNFGTQLRAQYGDDFLSAFYDQNNMKGSLERTADMIGRTTVLLGSISGVTNYQRTSFLSNFLSDDFKKLQRLEVFRNSPQLQRAFNSQVDSIGGEQGFNALTRKDRLLLLENIAAIAVDDDIIKAYKDSLGGVLSRLGQELFGDIGIFSFTRDLIFGLPNTSILNSITFFMKEVFAPDGVFGLIKPALQGIVDTVLIGTKFILDRTSFIFMGLNALARVLQPIAPLIYATSSALTVLAAVGLANTIKSAVQGYLISSGAAMLGGRMGMAAMFGMGGDLVGLKTLGTLGLGKLIAPLGFLTMGLDKLADVGWLAISGGFAKAALGIKTFGMSLWAIVANPAFLTIAGIVGAIALAGYTLWKYWEPIGDFLQGFWIGFKAGLPILDQIESVLQSIGQALSPITEGFKNMASAMQPVLDGFTKFFNLQQEKGGENYVKQGVNFGDAASGVTRTILSNPLINPFSGFFGLFGNPAQNKADGDPQSVMSAINDERRKMPSGASLVIANSSENVFTRSQTQQLASAGRGSTVINNTFNISGADPQAIAKQIADIINSQWQGTLTDYA

Entity 4 polymer

描述 description	baseplate gp16
分子量 formula_weight	17151.3 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	J,K,L,M,N,O

MTTQEFLSKNKTIESELLDLLIKPNTDDSILTRNKQAIADRDLFDIEWEPGQSLNKLATEYLGDSFAWQIIADANGIDPTKEIDIGAGLKVPDQKALENSIKKFIVNSPTGKQLISDAKQSILNLIGVGDSNTEFSKTLKDCIGKVVNFSFDNTQ

Entity 5 polymer

描述 description	tube initiator
分子量 formula_weight	31966.8 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	P,Q,R,S,T,U

MSKFLKNRAVVNGLPVIKNPGKYQHCYLIEYEDSTNVKQTPTENKNKQQQGFPVYLFMMNPENITYNLPINYQEIAIPFTAKNQLNYSNGGNIVMTMSNLILDTMDEKRSLQPLIDRLIALREPTVKKGLKSHPKILAFKWGSNTFAPCVLTNISFDVTRWIDGYPTKARVNMSLKEIQKPSSDSKALEEAKKKVKVETVQNGNLKKTLSEKQLIDGVKRVTEYLKKNISFQPRTIQNILSDPKSVIKIDKDTGQVSLFNGNGEFAALVGTYNGDIFSPSRQ

Entity 6 polymer

描述 description	sheath initiator
分子量 formula_weight	12997.7 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	V,W,X,Y,Z,a

MYVYPPRIINGTLYKSTDLAEYTRGKILQTLSIVRGELVADPFFGVPLRLFSNINDYQSDVSKIQIILEEEITEAQFIVTGDLKNNGIVSLTVYWAYLGTENIENFEIDTSNIF

Entity 7 polymer

描述 description	wedge protein gp31
分子量 formula_weight	42385.9 kDa
来源方法 src_method	nat
拷贝数 entity_count	12

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	b,d,e,g,h,j,k,m,n,p,q,s

MTTDLNAPQLVVDDYEQLIIDSLVHTNVVSNGEFTDLDASGFMRPFAGTMAYAGSELLYKANLASIAAAKSFFKNVLGVPEDTGTKATTTLQFGLSASLSTDFIVPINFQVSDLSGTLRFYTIGNLVIPAGATFGTIEAIAEDIGEKYNVSANFIDQYSTPLTYLQYVTNIRPATNGRSGETIDNLIERCAQIIRIRNPVSALDFEQLAELTMGEGSRCKAIGLLGINKIVTDPQPGVVHLFLLDVNGNPADPVTISTVGATLQPRIMLGTRLLISPMEVLNIELELIALSDSSKTFQQLADDILEALKVFFNPANLTPGEPVLIEEVKFAIRSVGGLSISYLQMNDNAINIPMPNQWTIPRFSYIGFELTDSEGTVYRDNVVTVTNPEE

Entity 8 polymer

描述 description	wedge protein gp32
分子量 formula_weight	22423.4 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	c,f,i,l,o,r

MSKDAFTAWNVDRRPIYSRMPKEQVGTSYHDYIATDWLTAYWDKIFIECYDKLEDLPRQFDPLQCDEEYLDFLAPLCGWTAPYWSGDYPPESKRVLLANSYSLIWRDKGSLTVLSFVLNALFINHRIFVPGSFILGQSQVSEDTLGAAGWEFEILLPRDYAENGYEFRLTLKIASLFSPLWCKYRVRYDNL

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7. 引用文献 (1)

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分辨率 resolution	3.44 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	41062

fit	/app/data/saxs_computation/ke/8kea/8kea.fit
pddf	/app/data/pr_computation/ke/8kea/8kea.pr.out
profile	/app/data/saxs_computation/ke/8kea/8kea.dat

Cyanophage A-1(L) baseplate-initiators

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 (8)

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

Entity 7 polymer

聚合体 Polymer

Entity 8 polymer

聚合体 Polymer

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)