SAXSdb — 9oce

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1. 结构基本信息 1. Structure Basics

条目编号 entry_id	9oce
沉积日期 deposition_date	2025-04-24
结构标题 title	2.48A cryo-EM structure of the Measles Virus L-P-C in complex with ERdRp-0519
关键词 keywords	;Measles virus, L protein, phosphoprotein, RNA-dependent RNA polymerase, PRNTase, GDP polyribonucleotidyl transferase, RNA capping, MTase, viral replication, VIRAL PROTEIN, TRANSFERASE, C protein, ERdRp-0519 ;; VIRAL PROTEIN, TRANSFERASE
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	47.99 Å
回转半径 Rg (电子) rg_electron	47.81 Å
零角强度 I(0) i0	2365130000.00
分子量 molecular_weight	269160.0 kDa
排除体积 excluded_volume	260990 Å³
包络体积 envelope_volume	523930 Å³
水化壳体积 shell_volume	91800 Å³
包络直径 envelope_diameter	172.9 Å
壳层 Rg shell_rg	52.31 Å
包络 Rg envelope_rg	46.78 Å
形状 Rg shape_rg	47.84 Å
总 Rg total_rg	47.90 Å
总原子数 total_atoms	20393
残基数 n_residues	2558
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	163.1 Å
Rg (实空间) rg_real	48.01 Å
Rg 误差 (实空间) rg_real_error	1.42 Å
I(0) (实空间) i0_real	2.3650e+09
I(0) 误差 (实空间) i0_real_error	5.0200e+07
Rg (倒空间) rg_reciprocal	47.99 Å
I(0) (倒空间) i0_reciprocal	2365000000.0000
解质量估计 total_estimate	0.8611
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	54.4 Å
偏度 Skewness skewness	0.411
峰度 Kurtosis kurtosis	-0.127
角度范围 angular_range	— – 0.1650 Å⁻¹
当前正则化参数 α current_alpha	0.0000
最高正则化参数 α highest_alpha	98450000.0000
实空间数据点数 n_real_points	34
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.797; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.804

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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	RNA-directed RNA polymerase L
分子量 formula_weight	247910.6 kDa
EC 编号 ec_number	2.7.7.48,3.6.1.-,2.7.7.88,2.1.1.-
来源方法 src_method	man
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	20404

MDSLSVNQILYPEVHLDSPIVTNKIVAILEYARVPHAYSLEDPTLCQNIKHRLKNGFSNQMIINNVEVGNVIKSKLRSYPAHSHIPYPNCNQDLFNIEDKESTRKIRELLKKGNSLYSKVSDKVFQCLRDTNSRLGLGSELREDIKEKVINLGVYMHSSQWFEPFLFWFTVKTEMRSVIKSQTHTCHRRRHTPVFFTGSSVELLISRDLVAIISKESQHVYYLTFELVLMYCDVIEGRLMTETAMTIDARYTELLGRVRYMWKLIDGFFPALGNPTYQIVAMLEPLSLAYLQLRDITVELRGAFLNHCFTEIHDVLDQNGFSDEGTYHELIEALDYIFITDDIHLTGEIFSFFRSFGHPRLEAVTAAENVRKYMNQPKVIVYETLMKGHAIFCGIIINGYRDRHGGSWPPLTLPLHAADTIRNAQASGDGLTHEQCVDNWKSFAGVKFGCFMPLSLDSDLTMYLKDKALAALQREWDSVYPKEFLRYDPPKGTGSRRLVDVFLNDSSFDPYDVIMYVVSGAYLHDPEFNLSYSLKEKEIKETGRLFAKMTYKMRACQVIAENLISNGIGKYFKDNGMAKDEHDLTKALHTLAVSGVPKDLKESHRGGPVLKTYSRSPVHTSTRNVRAAKGFIGFPQVIRQDQDTDHPENMEAYETVSAFITTDLKKYCLNWRYETISLFAQRLNEIYGLPSFFQWLHKRLETSVLYVSDPHCPPDLDAHIPLYKVPNDQIFIKYPMGGIEGYCQKLWTISTIPYLYLAAYESGVRIASLVQGDNQTIAVTKRVPSTWPYNLKKREAARVTRDYFVILRQRLHDIGHHLKANETIVSSHFFVYSKGIYYDGLLVSQSLKSIARCVFWSETIVDETRAACSNIATTMAKSIERGYDRYLAYSLNVLKVIQQILISLGFTINSTMTRDVVIPLLTNNDLLIRMALLPAPIGGMNYLNMSRLFVRNIGDPVTSSIADLKRMILASLMPEETLHQVMTQQPGDSSFLDWASDPYSANLVCVQSITRLLKNITARFVLIHSPNPMLKGLFHDDSKEEDEGLAAFLMDRHIIVPRAAHEILDHSVTGARESIAGMLDTTKGLIRASMRKGGLTSRVITRLSNYDYEQFRAGMVLLTGRKRNVLIDKESCSVQLARALRSHMWARLARGRPIYGLEVPDVLESMRGHLIRRHETCVICECGSVNYGWFFVPSGCQLDDIDKETSSLRVPYIGSTTDERTDMKLAFVRAPSRSLRSAVRIATVYSWAYGDDDSSWNEAWLLARQRANVSLEELRVITPISTSTNLAHRLRDRSTQVKYSGTSLVRVARYTTISNDNLSFVISDKKVDTNFIYQQGMLLGLGVLETLFRLEKDTGSSNTVLHLHVETDCCVIPMIDHPRIPSSRKLELRAELCTNPLIYDNAPLIDRDATRLYTQSHRRHLVEFVTWSTPQLYHILAKSTALSMIDLVTKFEKDHMNEISALIGDDDINSFITEFLLIEPRLFTIYLGQCAAINWAFDVHYHRPSGKYQMGELLSSFLSRMSKGVFKVLVNALSHPKIYKKFWHCGIIEPIHGPSLDAQNLHTTVCNMVYTCYMTYLDLLLNEELEEFTFLLCESDEDVVPDRFDNIQAKHLCVLADLYCQPGTCPPIQGLRPVEKCAVLTDHIKAEAMLSPAGSSWNINPIIVDHYSCSLTYLRRGSIKQIRLRVDPGFIFDALAEVNVSQPKIGSNNISNMSIKAFRPPHDDVAKLLKDINTSKHNLPISGGNLANYEIHAFRRIGLNSSACYKAVEISTLIRRCLEPGEDGLFLGEGSGSMLITYKEILKLSKCFYNSGVSANSRSGQRELAPYPSEVGLVEHRMGVGNIVKVLFNGRPEVTWVGSVDCFNFIVSNIPTSSVGFIHSDIETLPDKDTIEKLEELAAILSMALLLGKIGSILVIKLMPFSGDFVQGFISYVGSHYREVNLVYPRYSNFISTESYLVMTDLKANRLMNPEKIKQQIIESSVRTSPGLIGHILSIKQLSCIQAIVGDAVSRGDINPTLKKLTPIEQVLINCGLAINGPKLCKELIHHDVASGQDGLLNSILILYRELARFKDNQRSQQGMFHAYPVLVSSRQRELISRITRKFWGHILLYSGNRKLINKFIQNLKSGYLILDLHQNIFVKNLSKSEKQIIMTGGLKREWVFKVTVKETKEWYKLVGYSALIKD

来源 Source

来源生物 organism	Measles virus strain Edmonston-B
NCBI 分类编号 ncbi_taxonomy_id	70146
宿主生物 host_organism	Spodoptera frugiperda

Entity 2 polymer

描述 description	Phosphoprotein
分子量 formula_weight	54088.3 kDa
来源方法 src_method	man
拷贝数 entity_count	4

聚合体 Polymer

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

MAEEQARHVKNGLECIRALKAEPIGSLAIEEAMAAWSEISDNPGQERATCREEKAGSSGLSKPCLSAIGSTEGGAPRIRGQGPGESDDDAETLGIPPRNLQASSTGLQCHYVYDHSGEAVKGIQDADSIMVQSGLDGDSTLSGGDNESENSDVDIGEPDTEGYAITDRGSAPISMGFRASDVETAEGGEIHELLRLQSRGNNFPKLGKTLNVPPPPDPGRASTSGTPIKKGTDARLASFGTEIASSLTGGATQCARKSPSEPSGPGAPAGNVPECVSNAALIQEWTPESGTTISPRSQNNEEGGDHYDDELFSDVQDIKTALAKIHEDNQKIISKLESLLLLKGEVESIKKQINRQNISISTLEGHLSSIMIAIPGLGKDPNDPTADVEINPDLKPIIGRDSGRALAEVLKKPVASRQLQGMTNGRTSSRGQLLKEFQLKPIGKKMSSAVGFVPDTGPASRSVIRSIIKSSRLEEDRKRYLMTLLDDIKGANDLAKFHQMLMKIIMKSG

来源 Source

来源生物 organism	Measles virus strain Edmonston-B
NCBI 分类编号 ncbi_taxonomy_id	70146
宿主生物 host_organism	Spodoptera frugiperda

Entity 3 polymer

描述 description	Protein C
分子量 formula_weight	21066.4 kDa
来源方法 src_method	man
拷贝数 entity_count	2

聚合体 Polymer

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

MSKTDWNASGLSRPSPSAHWPSRKLWQHGQKYQTTQDRSEPPAGKRRQAVRVSANHASQQLDQLKAVHLASAVRDLERAMTTLKLWESPQEISRHQALGYSVIMFMITAVKRLRESKMLTLSWFNQALMVIAPSQEETMNLKTAMWILANLIPRDMLSLTGDLLPSLWGSGLLMLKLQKEGRSTSS

来源 Source

来源生物 organism	Measles virus strain Edmonston-B
NCBI 分类编号 ncbi_taxonomy_id	70146
宿主生物 host_organism	Spodoptera frugiperda

Entity 4 non-polymer

描述 description	2-methyl-~{N}-[4-[(2~{S})-2-(2-morpholin-4-ylethyl)piperidin-1-yl]sulfonylphenyl]-5-(trifluoromethyl)pyrazole-3-carboxamide
分子量 formula_weight	529.6 kDa
来源方法 src_method	syn
拷贝数 entity_count	1

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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	2.48 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	524675

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

2.48A cryo-EM structure of the Measles Virus L-P-C in complex with ERdRp-0519

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 (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 non-polymer

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)