8fjl

Golden Shiner Reovirus Core Tropical Vertex

Method: ELECTRON MICROSCOPY D_max: 272.1 Å Quality: EXCELLENT

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	8fjl
沉积日期 deposition_date	2022-12-19
结构标题 title	Golden Shiner Reovirus Core Tropical Vertex
关键词 keywords	dsRNA, virus, RNA-dependent, RNA-polymerase; 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	— Å
回转半径 Rg (电子) rg_electron	104.60 Å
零角强度 I(0) i0	107666000000.00
分子量 molecular_weight	2748400.0 kDa
排除体积 excluded_volume	3411500 Å³
包络体积 envelope_volume	5604000 Å³
水化壳体积 shell_volume	429220 Å³
包络直径 envelope_diameter	340.9 Å
壳层 Rg shell_rg	108.30 Å
包络 Rg envelope_rg	102.30 Å
形状 Rg shape_rg	104.60 Å
总 Rg total_rg	104.60 Å
总原子数 total_atoms	197669
残基数 n_residues	24352
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	272.1 Å
Rg (实空间) rg_real	101.60 Å
Rg 误差 (实空间) rg_real_error	0.48 Å
I(0) (实空间) i0_real	1.0320e+11
I(0) 误差 (实空间) i0_real_error	1.7830e+09
Rg (倒空间) rg_reciprocal	107.00 Å
I(0) (倒空间) i0_reciprocal	108400000000.0000
解质量估计 total_estimate	0.9071
解质量评级 solution_quality	EXCELLENT a EXCELLENT solution
P(r) 峰数 n_peaks	1
主峰位置 r_peak_primary	127.0 Å
偏度 Skewness skewness	0.103
峰度 Kurtosis kurtosis	-0.576
角度范围 angular_range	— – 0.0750 Å⁻¹
当前正则化参数 α current_alpha	0.7271
最高正则化参数 α highest_alpha	4461000000.0000
实空间数据点数 n_real_points	16
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.999; Stabil: 0.951; Sysdev: 1.000; Positv: 1.000; Valcen: 0.941; Smooth: 0.000

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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 (12)

Entity 1 polymer

描述 description	RNA-directed RNA polymerase VP2
分子量 formula_weight	141605.3 kDa
EC 编号 ec_number	2.7.7.48
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	A
原子数 atom_count	197669

EELFNALPQPLQQLSLALAGEIPLTDHIFEQAASTWHVQPRSLTYKLLDHIPFSTPVVVPPSIYHSLDWSKCFAVNQDRVERVPTIDDPDDVYVPNSDIGPLLTSLHTIPDYGFLHPAIENDATTLRAERARCASTFYKIASSQARQVKLDPIRMLGFLLLVQARPRVPSGLVTDQPTRRDPTQSPALHAIWQVMQYYKVAGVYYAPALVVPSGAIWWIPPPGKRNVVSVQYLLTDLINLAILAHMTDMSPTLELTGVLMYLRAASSHSHAYTLLQMKSVFPALSLRSMYRNKGFGGKAPAIEWTEPRSKYKFRWTGVTQLHDGLRPRSPSMDVPTLEVLTKYELVDIGHIIIRERNAHPRHNHDSVRFVRDVMALTSGMYLVRQPTMSVLREYSQVPDIKDPIPPSAWTGPIGNVRYLLPSVQGPARHLYDTWRAAARQIAQDPQWHDPLNQAIMRAQYVTARGGSSASLKFALKVTGIVLPEYDDSKVKKSSKIYQAAQIARIAFMLLIAAIHAEVTMGIRNQVQRRARSIMPLNVIQQAISAPHTLVANYINKHMNLSTTSGSVVTDKVIPLILYASTPPNTVVNVDIKACDASITYNYFLSVICGAMHEGFEVGNADAAFMGVPSTIVSDRRSSVAPYSRPISGLQTMVQHLADLYAAGFRYSVSDAFSSGNKFSFPTSTFPSGSTATSTEHTANNSTMMEYFLNVHAPSHVKSASLKRILTDMTIQRNYVCQGDDGILLLPHEAASKISADDMNELLTCLRDYGQLFGWNYDIDWSDTAEYLKLYALMGCRIPNTSRHPPVGKEYAAPQTDEIWPSLIDIVIGHHLNGVTDVLNWREWLRFSWAFACYSSRGGYTNPKGQSFSAQYPWWTFVYLGIPPILLPGQTPFIHSCYMPPGDQGMFSILNGWRDWLISHASTTLPPLRHNHPVWGLSDVPSLLSQFGVYAGYHAAQHYRRPKPAPETASSDSINQITSDLTEYLFYDSALKARVMKGRYNWERLSSSLSLNVGSRVPSLFDVPGKWVAAGRDAEKPPPSSVEDMFTSLNRCIRRPTHSFSRLLELYLRVHVTLGESIPLAIDPDVPQVAGADPANDDHWFKYTCLGDIPSATRNYFGESLFVGRVVSGLDVEAVDATLLRLKILGAPPEAFIAVLNGIGMSDSEAHQIAGRISLANAQLVQIARVVHLSIPSSWMTLNTGPYIHHHAYDFKPGITQPSAKSRDKSIWMSPILKLLCTSYAMTVAGPVRTSIVTEIDGSAAALSGNLRVWMRDV

Entity 2 polymer

描述 description	Microtubule-associated protein VP5
分子量 formula_weight	79347.4 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	B

MITIVVIPTAHFSWTDTNFLNSVDYRLTSQPKIRDRFAVYAPGWLRRQLDEFSASLTASELLQALQTIPIPVKARCLLLPKPKRFAQWLLDVPSANIWHIPVTTLRATVASKHPSSDVYNYIPDHVPPSAEFDTVTRRVAAGRDIYVRSTKVLGAPLCLAAPAKYYAGYLSTHQLDGVYPDNWAPDNFHKREFCLTILPSLLGPRTFLLDVDADRDASYPLSVLWPQLRVLALKSRLLLPPVALLRRVVDPGLKPTWSADSDAAFRALRLSRPSSASKPTGFDFSALPVVDIICLFESEPDDHGRVAPGTRLTIHSVPTDLLTSLSIQEGVRYPLRQESGMFVPWVLLALLMSDDVTISGTRRSVKLETAHASARPFVHITVERCASARVVDVRGSPAMYANAVCLTLPKGSYKSTIIDTLPAMFSDLSILEQAAVIDSDALGDSLRPSFETQFLERLENLDPKLLDRAVASILSPASDTSDDAVTTVLDVFNALYREVMTPAQRSRLPLLTQQGRVLAFAHSDYELLSANIPIQVVRGSIPIDHVVNLLARRNRVGGTALQVLLDYCYRTQASPLAPTPAGRLYKQLFGPWLMVPRLSDPLIKLRLVASAPAKVLRAAGWTIDGDPPLEVSCLCAYVTDRAMAAALIERRLDSRALVNVGGDQLMFVEYAPPLPLVSIPRTFLLPVTYVVHWVSPQRVLLNGGNVSFTSGLEWTFDD

Entity 3 polymer

描述 description	Major inner capsid protein VP3
分子量 formula_weight	124694.5 kDa
EC 编号 ec_number	3.6.4.13
来源方法 src_method	nat
拷贝数 entity_count	10

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	C,D,E,F,G,H,I,J,K,L

DIITRPTSDSIAAVANATKPAAVVSDPQSMKVTPIVNPSSYVCNVCNARFSTMSALSEHLRSDHRDDASTLLATPMINNAIRSFLTAWDGIRILSPDVSSKHLSAYLDSAVANGPELIVEDTGLCTSFMLLDNIPSAHLTKELIGFTWFMQMYQMTPPLPEGAVNRIVCMTNWASLGDEGRGLEVRLPPPTDSSVHAYKTVLSRGYIDNAQFNPLALRSNVLLMLLQFTLSNLKINKSSTFTSDVTTITSGRMIRAFEGRPELLALAYPGRAVLPTQTKNAQFLSTAIADRIGRLDRANLIGGEVSAMVECMELCDALTLHIRETYVMLLRSMHQDPTQIVQIVNECANNLLNSTIPISLRPTILCPWFASSEDLRLQQVMHLVNISSNTAAALPLVEALSTLLRSVTPLVLDPTVLTNAITTISESTTQTISPISEILRLLQPMGNDYAAFWKCIASWAYNGLVTTVLSEDAFPDSSQSITHLPSMWKCLFLTLAGPMTSDPHSPVKVFMALANLLAQPEPIAIGVPGMHQTTPASQFSHPGVWPPGFLNPQLINPQQAPLLRAFAEHIRANWPQPSEFGYGSTLQGSANLFIPPNRMVYPWPNQPLPRLTVAPTYDSAMSNWISTTIAFFIRVVNSVNMTATVNDLTRRTMTGVMTAMRQVKTMTPFYIQHMCPTELSVLASVTVTPPFQVPFTRLVQNDVITNVLVARVDPAQRGDAAVDIRATHATFAAALPVDPAAIVVAMLCGQTETNLIPSHHYGKAFAPLFASNAMFTRNQRAVITREAFVCARSAVAQCQDAGFLVPRPLDALRQFDVTSAAAAEIMHAVNDAFKTAFDLDGALLDGLALYGDPRIADLSAAYLQYGGNVVREHVPPGPSHIHRTLQQVESTFMAEMNLFNVARGNLYLVQTATNGNWSPMAPVAAPPFVRGGPNVRVVGRFGTIVPRPDGLEPQLIDDGNVPRDIAGDWVYPSDVLQVSVAVFCDYVWPMVKAGRTRVLVELGHYVYTLHYYDPQISLDEAPILEEWLSKINPAGIPPVPFCIPIPQVYPCITARRVHYAFTSENNNDSLFSTNAASIDTAFGENAAVSPLRWPGLVDPNYRVGTNDLPNRITLYNSLYRYNFTYPTLDGIMYVRSAT

Entity 4 polymer

描述 description	Major inner capsid protein VP3
分子量 formula_weight	9147.7 kDa
EC 编号 ec_number	3.6.4.13
来源方法 src_method	nat
拷贝数 entity_count	5

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	M,N,k,l,m

TASPADTNVVPAKDAPTTNSPPSTTSPNQAAADANQQQAGIVSSQSGPNAVGDSAPSTSVNNDGDIITRPTSDSIAAVANATKPAAVVSDPQSM

Entity 5 polymer

描述 description	RNA (38-MER)
分子量 formula_weight	8850.2 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polyribonucleotide
链编号 strand_id	a5,b5

UAUAUAUAUAUAUAUAUAUAUAUAUAUA

Entity 6 polymer

描述 description	RNA (30-MER)
分子量 formula_weight	12027.1 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polyribonucleotide
链编号 strand_id	b6,a6

UAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUA

Entity 7 polymer

描述 description	RNA (52-MER)
分子量 formula_weight	16474.7 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polyribonucleotide
链编号 strand_id	a1,b1

UAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUA

Entity 8 polymer

描述 description	RNA (39-MER)
分子量 formula_weight	12662.5 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polyribonucleotide
链编号 strand_id	a3,b3

UAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUA

Entity 9 polymer

描述 description	Clamp protein VP6
分子量 formula_weight	44489.4 kDa
来源方法 src_method	nat
拷贝数 entity_count	10

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	V,W,X,a,b,d,e,g,h,n

AQRQFFGLTYNFYGQPAPLFDLNDLQELAGCYARPWTSRFSHLAISTGSLPVWSARYPSVASRNIIVNTLLGAHLNPFAGGQVTSHQGITWRDPVLSSLAPVPAIQPPPVWAVAENVPLDSNNYPTYVLNLSSMWPINQDVHIMTMWALSDQGPIYHLEVPVDPMPAATTAALMAYIGVPIAHLAQTAYRFAGQLPQSPDSTMVSTIRWLSAIWFGSLTGRLNRSRTCNGFYFEFAKPALNPDQAVLKWNDGARAAPPAAAQSSYMRCISPHWQHQIVEVAGALMSQSVTAVTGLPALIDEATLPAWSQGVANLTGNGQGVVPCLDYNPVPMAAARHLQWRQDGLITAAQEAQLNNDYTAYALTIERHLTAMLVANPIAAGRMPIQPFNAADFGQAGQTAAAVALAQAMFV

Entity 10 polymer

描述 description	Outer capsid protein VP1
分子量 formula_weight	141109.8 kDa
EC 编号 ec_number	2.7.7.50,2.1.1.56
来源方法 src_method	nat
拷贝数 entity_count	5

聚合体 Polymer

聚合体类型 type	polypeptide(L)
链编号 strand_id	Y,Z,c,f,i

AAVFGIQLVPKLNTSTTRRTFLPLRFDLLLDRLQSTNLHGVLYRALDFNPVDRSATVIQTYPPLNAWSPHPAFIENPLDYRDWTEFIHDRALAFVGVLTQRYPLTQNAQRYTNPLVLGAAFGDFLNARSIDIFLDRLFYGPTQESPITSITKFPYQWTIDFNVTADSVRTPAGCKYITLYGYDPSRPSTPATYGKHRPTYATVFYYSTLPARSRLLANLAAGPTVLEHFDSPTYGPHLLLPQTGDVLGYSSSLISQAALLMVESVMDALRDNANASASTAVTRLDQSYHPVTSFDPSTFNTLLQRATNLALLAVQGVQSESAIPAIPTMSDVRSFVARLMAEGDPQQWFPYRVDQILYWPESPFVPPIGPFYAPFRPVNFPFTTGSYTVVPDASRPLRLLPQYRNATITVQQADDAYEDTALSPLITTHGFCVTGGVSTSIYDISGDPTAYPPAQLVDTPNDYFDRERMARRDLFRRLRAPADRSAIKDRAVFDFLASLVNPTTANPVLDTSFSMAYLGASSAHANADEPVILADIRSGSIPGLPIPRRIVQFGYDVVHGSLLDLSRAVPTGTFGLVYADLDQVEDAGTDMPAANRAAIAMLGTALQMTTAGGVSVLKVNFPTRAFWTQVFNLYATHATTLHLVKPTIVNSSEVFLVFGGRQSNGALRSTTALQRALLSLYARNAAIDRAVTHIPFFGVPDDGTSDLGIDAVRLFDPMFSDAVANLPSNALASLVSRVVPSSIMFTRVPSNGPVSTTIYGKRTFLSNRRRARLRDVPMLITTTLVHQRRFTTPPTFTLFSSEAVPVTTLVAAGYNSFISEQTRNPNLAHLLDLGTGPECRILSLIPPTLQVTMSDARPCAELMASFDPALTAYVQGDYSTAAFWNGIRCDSATAIFTLGAAAAAAGTDLIAFVQQLIPRIVAAGGTRMWLQLNTPLYEVSSLPDLIDIDLRDRVYRFNGGERVEPYADPVPLQQAIAALLPAAALSWHTLSPTCDWLPYIIGVGSPLNLSDINTAISYSRLTPILHIDTTTPPLRVNPVPTPLNQQCAIRITSLDPAAVLSVQHNGVEVIGGTPGNVISVAGAAALQYILANQEFLLQFTPTLPGIFDVFLTTLGQPPVPRGSFTITPPPTTVVLNMPPPGQLDFTDVGNDARITCDPYYQLAVCIFKDGQYVRVNPEKASVVTNAPNRDLHFVLDLADNHVLLYLCDVTPSGLGDRIAFPIVDIYRIAFPRNTPVRASLPYTGGGAHLTSGGNPFMSLTTPPAVLPAGVALAALSTSVATQYPTYTLPAGVYEYVI

Entity 11 polymer

描述 description	RNA (60-MER)
分子量 formula_weight	19016.2 kDa
来源方法 src_method	nat
拷贝数 entity_count	2

聚合体 Polymer

聚合体类型 type	polyribonucleotide
链编号 strand_id	a2,b2

UAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUAUA

Entity 12 non-polymer

描述 description	ZINC ION
分子量 formula_weight	65.4 kDa
来源方法 src_method	syn
拷贝数 entity_count	4

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7. 引用文献 (1)

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分辨率 resolution	3.27 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	99323

fit	/app/data/saxs_computation/fj/8fjl/8fjl.fit
pddf	/app/data/pr_computation/fj/8fjl/8fjl.pr.out
profile	/app/data/saxs_computation/fj/8fjl/8fjl.dat

Golden Shiner Reovirus Core Tropical Vertex

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 (12)

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

Entity 9 polymer

聚合体 Polymer

Entity 10 polymer

聚合体 Polymer

Entity 11 polymer

聚合体 Polymer

Entity 12 non-polymer

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)