8fnk

Cryo-EM structure of RNase-untreated RESC-B in trypanosomal RNA editing

Method: ELECTRON MICROSCOPY D_max: 224.7 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	8fnk
沉积日期 deposition_date	2022-12-27
结构标题 title	Cryo-EM structure of RNase-untreated RESC-B in trypanosomal RNA editing
关键词 keywords	HEAT repeat, trypanosoma, RNA editing substrate binding complex, gRNA, RNA BINDING PROTEIN-RNA complex; RNA BINDING PROTEIN/RNA
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	64.47 Å
回转半径 Rg (电子) rg_electron	63.75 Å
零角强度 I(0) i0	3022550000.00
分子量 molecular_weight	441050.0 kDa
排除体积 excluded_volume	543660 Å³
包络体积 envelope_volume	861760 Å³
水化壳体积 shell_volume	117860 Å³
包络直径 envelope_diameter	275.6 Å
壳层 Rg shell_rg	61.09 Å
包络 Rg envelope_rg	62.62 Å
形状 Rg shape_rg	63.68 Å
总 Rg total_rg	63.94 Å
总原子数 total_atoms	30831
残基数 n_residues	3750
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	224.7 Å
Rg (实空间) rg_real	64.42 Å
Rg 误差 (实空间) rg_real_error	1.91 Å
I(0) (实空间) i0_real	3.0090e+09
I(0) 误差 (实空间) i0_real_error	6.3890e+07
Rg (倒空间) rg_reciprocal	63.71 Å
I(0) (倒空间) i0_reciprocal	3014000000.0000
解质量估计 total_estimate	0.8421
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	65.5 Å
偏度 Skewness skewness	0.607
峰度 Kurtosis kurtosis	0.069
角度范围 angular_range	— – 0.1200 Å⁻¹
当前正则化参数 α current_alpha	0.0486
最高正则化参数 α highest_alpha	252600000.0000
实空间数据点数 n_real_points	25
GNOM 版本 gnom_version	4.1.3
质量判据 quality_criteria	AN1: 0.000; Oscil: 0.730; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.994; Smooth: 0.748

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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 (11)

Entity 1 polymer

描述 description	mRNA
分子量 formula_weight	15963.1 kDa
来源方法 src_method	nat
拷贝数 entity_count	1

聚合体 Polymer

聚合体类型 type	polyribonucleotide
链编号 strand_id	m
原子数 atom_count	30831

UAUAUAAUAGAAUAAGAUAAGUUUUUUUUUUUUUUUUUUUUUUUUUUUUUU

Entity 2 polymer

描述 description	gRNA
分子量 formula_weight	13742.2 kDa
来源方法 src_method	nat
拷贝数 entity_count	1

聚合体 Polymer

聚合体类型 type	polyribonucleotide
链编号 strand_id	g

AAAAAAAAAAAAAAAAAAAAAAAAAAAUUUUUUUUUUUUUUUU

Entity 3 polymer

描述 description	RNA-editing substrate-binding complex protein 5 (RESC5)
分子量 formula_weight	43469.5 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	5

MLRHTSRNNALHAFVRSPHYRTIPSAGPNGIVVNRDMLVHQFRDFYKTLQHCSLVDKVHLMSERPSVEALRVADQMVSIGATFLEMPLTGMEHRATEFMESMRYVRGAGGPSTLASYLQDTENCRCNSGDVVCLPNGIAVGHGPRTNAVAHTTLKQLFEVKDDQFSFDVFTLEQEGDAPPLGDYFGFAGSNVLLTWKDEHGLLAVDQYQQKQPHTEMNVVYLEPGCHFLSFYGVDHTIDVLVQKGYERSMDSIAAAGLNPIPVQWSEMDKLGISMRAAVLPLKFFKANVGGMLSRNKSRGARWQTHQLQKGSGSGSASSGASAAGSSGASASSGASAAGSSGASAGHHHHHHHHHHSGSEDQVDPRLIDGKASAWSHPQFEKGGGSGGGSGGSAWSHPQFEK

Entity 4 polymer

描述 description	RNA-editing substrate-binding complex protein 6 (RESC6)
分子量 formula_weight	57823.5 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	6

MRSALRRCILRHQGCLRMKQSLSAFPTVVTGMTRHQGNSLIGTTHGAELSLAGDPQSVSHLSARNIATEALQMKKLHQERGGNPMLAQQARRVLFATSIAGQNLDARSVALLLNTAVYFGMESDAKLVRECIDYCLKNDKLITVDVLPIVVTACATLKSRDAREVIEMQAQKAARNAKFLDAKDVTNIISAFSKTGINHEKLFAFLSRRVQTLARVGEFEAAHLVILANAFSRLRYRDKFLFGAIARRAMSLRERVTVNELVPLIVAFSKIGLKDPKLSKRFATKAMEYVDQMNAEQVASMFMAFAYFGIRYDQLFGVLTNRAVELIDEFNAQYISTTLNAFQRIGINNPELFDNLAERALAVVQDHDARDISKTVTALAHFGLKDEELFKRLASHAASIADQFDAMGLVNTAHAFARTNFLQQDMAVALSERSVYVCRLLDAGETRRLLWALAKFQVRDPKILTPVFNRCLALHYDFFADPTGSEEIEEIFDFYGPNFCPPLYQLYISRGSTPQA

Entity 5 polymer

描述 description	RNA-editing substrate-binding complex protein 7 (RESC7)
分子量 formula_weight	18669.7 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	7

MRSSRGILFLSGAFAIRGMSAYHSYQRLDTVSHTSKVYSLQMQRQTVHFTPITRLGVEATANPTTATNATGQTGDGDGATALDVAMRVNKLKRLHQTGGGPSGKKQVELDAWRDLNNLTEAQINSAEGKAVSLLLNSWAYFAKYWEKGAEGPSASLSEVTPSNDSSSAGEHGTQ

Entity 6 polymer

描述 description	RNA-editing substrate-binding complex protein 8 (RESC8)
分子量 formula_weight	61109.8 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	8

MLNVLSSTASAALATVVVARPSALHLIFERCKLNLVEFTAQDVYQICTTAYNMDTLGMLQDPDFMRGLHDAFRRSDQTVISPFQANLIADTFRKVGINSMPKEVSVPEEDAISPESLILVLRNMNITKQRDERKINEVLKLMFPILDEFSPTQLSLTVTELARLKSTNADFVGKLAKRIMEYNDDLSALDISSAAVSLAYCPGISHNILYRMMQIVEERMGEFQPEDYINVLHALNTLGPKFVNTFRKIVECGLQHVENMDAVTLTNYMVCFSTMDYKQREHIDIYADALVEVATDLSEKDLVMAFIALQRLRLLSDTMFGTMASCVIRYAAKMDPRNIAPIMDICSTVPHASDHLMKVLMDRAVECTRILTANQLGDILDILGLYPPAREHPLVQLFGKQARLRLDLMGPDALANATRGLANLGYADPEYYAQAAETGFRYGFKDWTLLEPMLMGLSITGQCPPTMVRVLGSHIAPMARSMSLMEIERANRYLRRLGCEDDFVYKAMASRVLQFVKEVTPEMPEDLQVLLQRGAVEPGAAPGVM

Entity 7 polymer

描述 description	RNA-editing substrate-binding complex protein 9 (RESC9)
分子量 formula_weight	96668.2 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	9

MLLPTLERLLERCGRPIFSNVEDVRMVMASLLDISAYVDRASTKVIAKPLRRFCHKDPDTVASVMEAVPIDAAEPTHGRRAAMLLRCLPKHSCDEVIWERAVAATLAGLKSRKWDLHDYRVAMAHAGRGGRHAPALAAAAEEFVSSSARTASQSELPALLVILTSLPELKRSPCLQVAADRIVQLSEILSPAAIGQICASVNKVSFRHTAMAIALQEEAIRFAEESDLFSAVQLFSFICQQEKEAISPDAVKCLAERVIEGKDLDQETVSVLCRALRSIPRPHRPELLREIGEMMEFLGGEVKELLELPVAKGGLKGDVSAGDIQSFISKFLSLDGLLPADHDRPGTYMAAIVACVDYITERLEDIVSDENPPFSIIPHLLNINMEETRRCGQAIIREAAEQGIHFPTLQVFRFLLALGDHNMRDQRVYRHLRNEFAKTASDIPMIQLCAALKCFVRGLMQNVETQSLDEQVEHELEKEDMDAFLRFCVENLRRGFADGMEVKCVMAATESLYQLGYTSTEFYEQVARYLGSKCSSASASVNSSETATAVCLALGEDILDRHPDVHTFLLEVEKSGLKGEASLSPTEWMNKNDPANFITPLTEIQQEGWNIINRMVETRAADTEKLTALANEYVAILKSTRVDDLKYFFGVFEEKVFKQDRILKQCLDYLVESNAAVKLSATSIGAMLNSLAAIRFTYHRSVKQFMIAISTEQWSEMDASPLVKIVSAMAKLSLRLPQVLVHVGDRLLDVYTFLSPLDTALVINSLQSIGYGNDEVLMMLMRHAASSARRWDEVSLTLLFGASGVHRLLRNVEVAAPLLEQAAGKTSSPHLRQRIAASLRRSALPRALVQSSTSLLTGGAHEVVNNPPLQLV

Entity 8 polymer

描述 description	RNA-editing substrate-binding complex protein 10 (RESC10)
分子量 formula_weight	60563.7 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	10

MRRRVVLCCQDVGSLLSSKHSVHSGIGYHERVFSRNLLYRRYPVVTVLPKAGFTVLDTKRWIASSGPPVTGSPLSPVTNPSLNVGTGGGEAVAMEGPLPVSYSPGSGVNGSLPVTSTAITAHCDVLSECVAKADELAVQLKAQNALSASAEILTQEGMEEFVEELKTSATNEMTALVKQMQTTPLLQRAGMHELRRTLYYTTSLKERDWLEEKQYTAAMRMLTVEVLRRDGDGVLSADDVLYVTTHVVTANFYNRHLWNRMEKSLLKFSNYENIDMSSVKAFSTRLFKTRRGCAKETLDIRRKVLLAMSRRVGVLANDFDLPSLLGVLQCYTVHDLTPFHLEPLAIRATNHVGDFTPHECATLAHVLRKWRTMRLEVCERLVERICTSDQLTHHMANAAMIAIRTCFNQVSDGGRNAMNAEPTRQKLRAMGEQIGCRLDEVEYPALPVILSILDVVVTLKIYVPKKCLQVIFSQANDMVAIVMEQKDDLVDPKTGKRVRPITAEEGRQLQALLSHYGNDLAPELSQRMKEAFREGVLPDEASL

Entity 9 polymer

描述 description	RNA-editing substrate-binding complex protein 11 (RESC11)
分子量 formula_weight	103585.1 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	11

MYRLYRRTVGYQSLHQRLSACHVMCRHVSTDNSDGTTPPKPRRSGIRRVVPSDEEMAELHDLEQEVASTTSSRSKQSALSGVMVEPMRFSTSGGSGMEGDGDDLGELEAEGDEEGVGTNSLAEAENVYKRHNDGGALEKQGLAIPPSGKPTDPLLANRDDEGEGGAVPLSQAEEMTVSRSTLERQACVRSLSLEELVEAVTLYLRATKNPRLVSADEEHIFFPVLMERLNEFHVSQLLDVVECHWARSTLVRYGTTFKDMVRDRIALIATAAAKSASKRPAAAGKSGNDNRDGGAVEEEADDYDEQGDAVYVHEAEEKTSDLIILRAAEEMSPETVLRCIIVMGMSAGRRKRDLQFFQAMGMFLVHHINHYKDPHELVRVLTAFARAKIVPPKRFLALLGRRFAVLNKRKKLGSLPSYRAFVNLYKMGHDQMNTFRFLADCILETIDSNIKAEKKRLRLAQLQSSSNITAATTNENGATNESGCGGSTSSSNPTVTNITGAGDLKATHTSEGASDVAFIGDLDPHLLQNLRARERFKRLTELKPSMFTKLLLVLARFGAPHQQYLRPTTVPLILPTLRAFPPPSFTRLLRAMSLFRTTDLDLIEPVIDFMADSLGPTNVVPADVLQMVRLVAPPDVPVPRNLVKLISLCEAVYSSSASFSHSDGKSSDSADAAACAMTTLSPIRPGDMCAVAVVLLKIQMKDDVPLEALDPLTRLMEFFAERMYLLMKLHIVSLTHVDVFTDLCRQQQHPDVSGHIERLCAERRRVNDAEGDDEYYSQLDIDVRETLHRILIVNDYNTYGQYRPTPGVLQVDFKQALTEVSAFDVLEAADLFAQAFSNALKPAVERHLSRSIIAKLDGGGEEVITEGNSIVLRPPRELLLTREDLGKFVCLLQRTPLRRVRASPVVWRFVEEKAKKLGMDDVLRVVENKLATAV

Entity 10 polymer

描述 description	RNA-editing substrate-binding complex protein 13 (RESC13)
分子量 formula_weight	32445.3 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	13

MKRTPVRVLNATVAFLQGWGGGSSGGGWGSDDGPGNGSGGGGSGGRGGWGSGGGGGGGWGSGGGGNGGWGSGGGGGGGWGSGGGGRGSGGGSNGGWGSGRGGSAHGFSNPWNDGDAGWRGAATGARANRGRGGFRRGRGGADDGVWGQPNVVDEEAWTAAPPSFNPPVRRVDPLTLTAVEVEIDGIKKLVGQRVQVSGLSDETTWHTLKDHLRQAGEVTFCKVFSGGRAVVEFVTPEDAARAITELQASELEGATLFLREDREDTVLVNTRRKIREVRDAQLRARKEEMEKKRREQAIAEGDCSAPAPPAEVAGDASQKV

Entity 11 polymer

描述 description	RNA-editing substrate-binding complex protein 14 (RESC14)
分子量 formula_weight	41293.1 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	14

MRSGRKLGCFTNRLRLPFFSPCSQITALTASHRCKSYVLKFLRGQLPEDLKDVNGALGCLYGTLPDVDEFGQFVISPDVVNSFHQFGYVKMPIPVLDHQQIDKLADEVNELANNVEHHPKTERLYATSLADLTGGPLFFCQGQWRAAWGMHDLIYLPTITVAASQILNNSLVRLWYDEVFMKAARTGPCVPWQQNYARWQHTKPVNHVTVMIALDTMNKDRGAPCLVPGSHRWREGGLLPPVSYDPTKDEAHQLNTIWEIINEEEGEMLMDTPPVTVDLRRGEALLIHPLTLFATHGNRSLDAVRCCFIHYMGEKTYAVQNGPLLPHTTKFQADAMIQGPFYPVVFDPAMTEELTMLPTAPSEEEA

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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	3.70 Å
分辨率测定方法 resolution_method	—
颗粒数 num_particles	62372

fit	/app/data/saxs_computation/fn/8fnk/8fnk.fit
pddf	/app/data/pr_computation/fn/8fnk/8fnk.pr.out
profile	/app/data/saxs_computation/fn/8fnk/8fnk.dat

Cryo-EM structure of RNase-untreated RESC-B in trypanosomal RNA editing

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 (11)

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

7. 引用文献 (1)

8. 文件与曲线 (10)

Files (7)

Curves (3)