EMDB-3847: Cryo-EM structure of the 90S pre-ribosome from Chaetomium thermophilum

Basic information

• Entry: Database: EMDB / ID: 3847
• Title: Cryo-EM structure of the 90S pre-ribosome from Chaetomium thermophilum

Sample

The 90S Pre-ribosomne

• Periodic tryptophan protein 2-like protein
• Utp2
• Utp3
• Utp4
• Utp6
• Utp7
• Utp10
• U3 small nucleolar RNA-associated protein 11
• Utp12
• Utp13
• Utp14
• Utp15
• Utp17
• Utp18
• Putative U3 snoRNP protein
• Utp24
• Utp30
• Nop1
• Putative nucleolar proteinNucleolus
• Nop58
• Snu13
• Rrp9
• RNA 3'-terminal phosphate cyclase-like protein
• Bms1
• Imp3
• (Putative U3 small nucleolar ...) x 2
• Sof1
• Emg1
• KRR1 small subunit processome component
• Pre-rRNA-processing protein PNO1
• RNA cytidine acetyltransferase
• Fcf2
• (40S ribosomal protein ...) x 15
• Faf1
• (nucleic-acidNucleic acid) x 2
• ligand

• Function / homology: Possible tRNA binding domain / Alpha/beta knot methyltransferases / Ribosomal protein S7 domain / Ribosomal RNA assembly KRR1 / Periodic tryptophan protein 2 / P-loop containing nucleoside triphosphate hydrolase / 40S ribosomal protein S1/3, eukaryotes / Protein of unknown function DUF4602 / Ribosomal protein S17, archaeal/eukaryotic / Ribosomal protein L1/ribosomal biogenesis protein / Ribosomal protein S28e conserved site / Helix hairpin bin domain superfamily / tRNA (guanine-N1-)-methyltransferase, N-terminal / PIN-like domain superfamily / Ribosomal protein L1-like / S-adenosyl-L-methionine-dependent methyltransferase / 50S ribosomal protein L30e-like / Bms1/Tsr1-type G domain / 40S ribosomal protein S4, C-terminal domain / 40S ribosomal protein S11, N-terminal / TmcA/NAT10/Kre33 / RNA cytidine acetyltransferase NAT10 / Ribosomal protein S8 superfamily / Nop domain superfamily / WD40-repeat-containing domain superfamily / RNA 3'-terminal phosphate cyclase, insert domain superfamily / K Homology domain, type 1 superfamily / RNA 3'-terminal phosphate cyclase domain / Ribosomal protein S15P / Ribosomal protein S11 superfamily / Ribosomal protein S6e, conserved site / Fcf2 pre-rRNA processing / WD40/YVTN repeat-like-containing domain superfamily / Armadillo-type fold / Ribosomal protein L1, 3-layer alpha/beta-sandwich / RNA 3'-terminal phosphate cyclase type 2 / WD40-repeat-containing domain / Ribosomal protein S4, conserved site / Ribosomal S24e conserved site / Ribosomal S11, conserved site / Ribosomal protein S4e, N-terminal, conserved site / Ribosomal protein S3Ae, conserved site / Pyrrolo-quinoline quinone beta-propeller repeat / Ribosomal protein S4/S9 / Ribosomal protein L7Ae/L8/Nhp2 family / Sas10 C-terminal domain / U3 small nucleolar RNA-associated protein 15, C-terminal / WD40 repeat, conserved site / Ribosomal protein S17, conserved site / G-protein beta WD-40 repeat / Ribosomal protein S5 domain 2-type fold / Ribosomal protein S9, conserved site / Ribosomal protein S7, conserved site / Fibrillarin, conserved site / U3 small nucleolar RNA-associated protein 10 / Ribosomal protein S8e/ribosomal biogenesis NSA2 / Ribosomal protein S7 domain superfamily / RNA-binding S4 domain superfamily / Ribosomal protein S5 domain 2-type fold, subgroup / Ribosomal S13/S15 N-terminal domain / Dip2/Utp12 Family / Mpp10 protein / Nop14-like family / Sof1-like domain / Utp21 specific WD40 associated putative domain / Brix domain / Utp14 protein / Fcf1 / 40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal / Helicase / RNA 3'-terminal phosphate cyclase (RTC), insert domain / RS4NT (NUC023) domain / Utp11 protein / AARP2CN (NUC121) domain / BP28CT (NUC211) domain / BING4CT (NUC141) domain / NOP5NT (NUC127) domain / Domain of unknown function (DUF1726) / Utp13 specific WD40 associated domain / U3 small nucleolar RNA-associated protein 6 / Fcf2 pre-rRNA processing / Sas10 C-terminal domain / UTP15 C terminal / U3 small nucleolar RNA-associated protein 10 / GNAT acetyltransferase 2 / Sas10/Utp3/C1D family / EMG1/NEP1 methyltransferase / RNA 3'-terminal phosphate cyclase domain superfamily / Ribosomal protein S8 / rRNA-processing protein Fcf1, PIN domain / Ribosome biogenesis protein Bms1, N-terminal / Ribosomal protein S4e, central domain superfamily / ATPase family associated with various cellular activities (AAA) / Ribosomal protein S4/S9 N-terminal domain / Ribosomal protein S12/S23 / Ribosomal protein S7p/S5e / Ribosomal protein S15 / Ribosomal protein S17 / Ribosomal protein S9/S16 / WD domain, G-beta repeat
• Source: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)
• Method: single particle reconstruction / cryo EM / 3.2 Å resolution
• Authors: Cheng J / Kellner N
• Citation: Journal: Nat. Struct. Mol. Biol. / Year: 2017; Title: 3.2-Å-resolution structure of the 90S preribosome before A1 pre-rRNA cleavage.; Authors: Jingdong Cheng / Nikola Kellner / Otto Berninghausen / Ed Hurt / Roland Beckmann
• Validation Report: PDB-ID: 5oql; ; SummaryFull reportAbout validation report
• Date: Deposition: Aug 12, 2017 / Header (metadata) release: Jul 19, 2017 / Map release: Oct 11, 2017 / Last update: Nov 15, 2017

Map

• File: emd_3847.map.gz (map file in CCP4 format, 442369 KB)
• Voxel size: X=Y=Z: 1.084 Å

Density

Contour Level:	0.04 (by author), 0.04 (movie #1):
Minimum - Maximum	-0.3247096 - 0.5959159
Average (Standard dev.)	0.00035213277 (0.0108130425)

Details

EMDB XML:

Space Group Number	1
Map Geometry	Axis order X Y Z Dimensions 480 480 480 Origin 0 0 0 Limit 479 479 479 Spacing 480 480 480
Cell	A=B=C: 1 Å α=β=γ: 90 deg.

CCP4 map header:

mode	Image stored as Reals
Å/pix. X/Y/Z	1.084	1.084	1.084
M x/y/z	480	480	480
origin x/y/z	0.000	0.000	0.000
length x/y/z	520.320	520.320	520.320
α/β/γ	90.000	90.000	90.000
start NX/NY/NZ
NX/NY/NZ
MAP C/R/S	1	2	3
start NC/NR/NS	0	0	0
NC/NR/NS	480	480	480
D min/max/mean	-0.325	0.596	0.000

Supplemental data

Sample components

Entire The 90S Pre-ribosomne

• Entire: Name: The 90S Pre-ribosomne / Number of components: 53

Component #1: protein, The 90S Pre-ribosomne

• Protein: Name: The 90S Pre-ribosomne / Recombinant expression: No
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #2: protein, Periodic tryptophan protein 2-like protein

• Protein: Name: Periodic tryptophan protein 2-like protein / Recombinant expression: No
• Mass: Theoretical: 100.817508 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #3: protein, Utp2

• Protein: Name: Utp2 / Recombinant expression: No
• Mass: Theoretical: 103.960703 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #4: protein, Utp3

• Protein: Name: Utp3 / Recombinant expression: No
• Mass: Theoretical: 73.214633 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #5: protein, Utp4

• Protein: Name: Utp4 / Recombinant expression: No
• Mass: Theoretical: 97.696523 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #6: protein, Utp6

• Protein: Name: Utp6 / Recombinant expression: No
• Mass: Theoretical: 46.924773 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #7: protein, Utp7

• Protein: Name: Utp7 / Recombinant expression: No
• Mass: Theoretical: 63.629379 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #8: protein, Utp10

• Protein: Name: Utp10 / Recombinant expression: No
• Mass: Theoretical: 198.508438 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #9: protein, U3 small nucleolar RNA-associated protein 11

• Protein: Name: U3 small nucleolar RNA-associated protein 11 / Recombinant expression: No
• Mass: Theoretical: 31.37965 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #10: protein, Utp12

• Protein: Name: Utp12 / Recombinant expression: No
• Mass: Theoretical: 107.573039 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #11: protein, Utp13

• Protein: Name: Utp13 / Recombinant expression: No
• Mass: Theoretical: 100.430352 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #12: protein, Utp14

• Protein: Name: Utp14 / Recombinant expression: No
• Mass: Theoretical: 104.741391 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #13: protein, Utp15

• Protein: Name: Utp15 / Recombinant expression: No
• Mass: Theoretical: 60.524145 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #14: protein, Utp17

• Protein: Name: Utp17 / Recombinant expression: No
• Mass: Theoretical: 105.039695 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #15: protein, Utp18

• Protein: Name: Utp18 / Recombinant expression: No
• Mass: Theoretical: 69.055141 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #16: protein, Putative U3 snoRNP protein

• Protein: Name: Putative U3 snoRNP protein / Recombinant expression: No
• Mass: Theoretical: 115.122008 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #17: protein, Utp24

• Protein: Name: Utp24 / Recombinant expression: No
• Mass: Theoretical: 22.267188 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #18: protein, Utp30

• Protein: Name: Utp30 / Recombinant expression: No
• Mass: Theoretical: 43.700527 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #19: protein, Nop1

• Protein: Name: Nop1 / Recombinant expression: No
• Mass: Theoretical: 32.960844 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #20: protein, Putative nucleolar protein

• Protein: Name: Putative nucleolar proteinNucleolus / Recombinant expression: No
• Mass: Theoretical: 57.830699 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #21: protein, Nop58

• Protein: Name: Nop58 / Recombinant expression: No
• Mass: Theoretical: 64.292113 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #22: protein, Snu13

• Protein: Name: Snu13 / Recombinant expression: No
• Mass: Theoretical: 13.831854 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #23: protein, Rrp9

• Protein: Name: Rrp9 / Recombinant expression: No
• Mass: Theoretical: 69.610438 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #24: protein, RNA 3'-terminal phosphate cyclase-like protein

• Protein: Name: RNA 3'-terminal phosphate cyclase-like protein / Recombinant expression: No
• Mass: Theoretical: 43.399766 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #25: protein, Bms1

• Protein: Name: Bms1 / Recombinant expression: No
• Mass: Theoretical: 134.17225 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #26: protein, Imp3

• Protein: Name: Imp3 / Recombinant expression: No
• Mass: Theoretical: 21.802396 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #27: protein, Putative U3 small nucleolar ribonucleoprotein

• Protein: Name: Putative U3 small nucleolar ribonucleoprotein / Recombinant expression: No
• Mass: Theoretical: 34.216266 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #28: protein, Putative U3 small nucleolar ribonucleoprotein protein

• Protein: Name: Putative U3 small nucleolar ribonucleoprotein protein / Recombinant expression: No
• Mass: Theoretical: 86.082141 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #29: protein, Sof1

• Protein: Name: Sof1 / Recombinant expression: No
• Mass: Theoretical: 50.869828 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #30: protein, Emg1

• Protein: Name: Emg1 / Recombinant expression: No
• Mass: Theoretical: 27.936164 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #31: protein, KRR1 small subunit processome component

• Protein: Name: KRR1 small subunit processome component / Recombinant expression: No
• Mass: Theoretical: 37.500777 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #32: protein, Pre-rRNA-processing protein PNO1

• Protein: Name: Pre-rRNA-processing protein PNO1 / Recombinant expression: No
• Mass: Theoretical: 28.715047 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #33: protein, RNA cytidine acetyltransferase

• Protein: Name: RNA cytidine acetyltransferase / Recombinant expression: No
• Mass: Theoretical: 119.795125 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #34: protein, Fcf2

• Protein: Name: Fcf2 / Recombinant expression: No
• Mass: Theoretical: 22.569129 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #35: protein, 40S ribosomal protein S1

• Protein: Name: 40S ribosomal protein S1 / Recombinant expression: No
• Mass: Theoretical: 29.245158 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #36: protein, 40S ribosomal protein S4

• Protein: Name: 40S ribosomal protein S4 / Recombinant expression: No
• Mass: Theoretical: 29.800764 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #37: protein, 40S ribosomal protein s5-like protein

• Protein: Name: 40S ribosomal protein s5-like proteinRibosome / Recombinant expression: No
• Mass: Theoretical: 23.679225 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #38: protein, 40S ribosomal protein S6

• Protein: Name: 40S ribosomal protein S6 / Recombinant expression: No
• Mass: Theoretical: 27.490139 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #39: protein, 40S ribosomal protein S7-like protein

• Protein: Name: 40S ribosomal protein S7-like proteinRibosome / Recombinant expression: No
• Mass: Theoretical: 23.08465 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #40: protein, 40S ribosomal protein S8

• Protein: Name: 40S ribosomal protein S8 / Recombinant expression: No
• Mass: Theoretical: 23.102416 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #41: protein, 40S ribosomal protein s9-like protein

• Protein: Name: 40S ribosomal protein s9-like proteinRibosome / Recombinant expression: No
• Mass: Theoretical: 22.029836 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #42: protein, 40S ribosomal protein S13-like protein

• Protein: Name: 40S ribosomal protein S13-like proteinRibosome / Recombinant expression: No
• Mass: Theoretical: 16.912891 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #43: protein, 40S ribosomal protein S14-like protein

• Protein: Name: 40S ribosomal protein S14-like proteinRibosome / Recombinant expression: No
• Mass: Theoretical: 16.071464 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #44: protein, 40S ribosomal protein S16-like protein

• Protein: Name: 40S ribosomal protein S16-like proteinRibosome / Recombinant expression: No
• Mass: Theoretical: 15.962771 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #45: protein, 40S ribosomal protein S11-like protein

• Protein: Name: 40S ribosomal protein S11-like proteinRibosome / Recombinant expression: No
• Mass: Theoretical: 18.698182 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #46: protein, 40S ribosomal protein S22-like protein

• Protein: Name: 40S ribosomal protein S22-like proteinRibosome / Recombinant expression: No
• Mass: Theoretical: 14.905471 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #47: protein, 40S ribosomal protein s23-like protein

• Protein: Name: 40S ribosomal protein s23-like proteinRibosome / Recombinant expression: No
• Mass: Theoretical: 15.934653 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #48: protein, 40S ribosomal protein S24

• Protein: Name: 40S ribosomal protein S24 / Recombinant expression: No
• Mass: Theoretical: 15.535286 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #49: protein, 40S ribosomal protein S28-like protein

• Protein: Name: 40S ribosomal protein S28-like proteinRibosome / Recombinant expression: No
• Mass: Theoretical: 7.74198 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #50: protein, Faf1

• Protein: Name: Faf1 / Recombinant expression: No
• Mass: Theoretical: 34.576586 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #51: nucleic-acid, 35S rRNA

Nucleic-acid

Name: 35S rRNA / Class: RNA / Structure: OTHER / Synthetic: No
Sequence:

GGGGGGAUGU CCGGGUCGCC CUGGGCACCU CUCCGCGGCA GCCUUCGCGG GCAAGCCGUA GUCCCGGUUC AUACGUCGCC GCAAUCGCGA GGGGACCAAC GGGUAACCGU UCCUCCAAGC GGUCGCCGGC GAGCACCACC CCAGCCCCGC CGCCGCCCCC AGCGCACCGC GCGCAGGGGG GCCGGCGCGG CAUCUGGGAA GACUCCUAAG GCGCAAGGGA AUACCCCGUG UGCGCCGGGG GUUGGGCUCU GUGGGUGCUU GGCCGCUGGC CAGACCUACU UCAAAGCCAC CGGGGGUACC UACCGGUUGG GGAAGCCCUA GCGGCUGAAC CUCUCGGUCG GGCCUCCUCU UGGGGCGCCU AGGCGGUGUC UUCGGGUCGC GUGCAGCCUC CCGUCCUCGC CUGCCGACAG CGCUCUGGGG AAUUCAGGAG GGGAAAGCAG AUGUGCCCCG CGGCGAGACU GGCGCACCGC CGGACGAGCU GCUGGGGCAC GCGGGUACGC UAGCCGCUAG CGCCCGCCAG CCUGUAACUA GAGUGAACUC GGCCGCCCUG AAACACGGGC GGUUGGCCUG CUUAGGCGCA CGAUAGUUAC CUGGUUGAUU CUGCCAGUAG UCAUAUGCUU GUCUCAAAGA UUAAGCCAUG CAUGUCUAAG UAUAAGCAAU UAUACAGCGA AACUGCGAAU GGCUCAUUAA AUCAGUUAUC GUUUAUUUGA UAGUACCUUA CUACAUGGAU AACCGUGGUA AUUCUAGAGC UAAUACAUGC UGAAAAUCCC GACUUCGGAA GGGAUGUAUU UAUUAGAUUA AAAACCAAUG CCCUUCGGGG CUUUCUGGUG AUUCAUAAUA ACUUCUCGAA UCGCACGGCC UUGCGCCGGC GAUGGUUCAU UCAAAUUUCU GCCCUAUCAA CUUUCGACGG CUGGGUAUUG GCCAGCCGUG GUGACAACGG GUAACGGAGG GUUAGGGCUC GACCCCGGAG AAGGAGCCUG AGAAACGGCU ACUACAUCCA AGGAAGGCAG CAGGCGCGCA AAUUACCCAA UCCCGACACG GGGAGGUAGU GACAAUAAAU ACUGAUACAG GGCUCUUUCG GGUCUUGUAA UUGGAAUGAG UACAAUUUAA AUCCCUUAAC GAGGAACAAU UGGAGGGCAA GUCUGGUGCC AGCAGCCGCG GUAAUUCCAG CUCCAAUAGC GUAUAUUAAA GUUGUUGAGG UUAAAAAGCU CGUAGUUGAA CCUUGGGCCU AGCCCGCCGG UCCGCCUCAC CGCGUGCACU GGCUGGGCUG GGCCUUUCCU UCUGGAGAAC CGCAUGCCCU UCACUGGGUG UGUCGGGGAA CCAGGACUUU UACUCUGAAC AAAUUAGAUC GCUUAAAGAA GGCCUAUGCU UGAAUACAUU AGCAUGGAAU AAUAGAAUAG GACGUGUGGU UCUAUUUUGU UGGUUUCUAG GACCGCCGUA AUGAUUAAUA GGGACAGUCG GGGGCGUCAG UAUUCAAUUG UCAGAGGUGA AAUUCUUGGA UUUAUUGAAG ACUAACAACU GCGAAAGCAU UCGCCAAGGA UGUUUUCAUU AAUCAGGAAC GAAAGUUAGG GGAUCGAAGA CGAUCAGAUA CCGUCGUAGU CUUAACCAUA AACUAUGCCG AUUAGGGAUC GGACGGCGUU UAUUUUUGAC CCGUUCGGCA CCUUACGAUA AAUCAAAAUG UUUGGGCUCC UGGGGGAGUA UGGUCGCAAG GCUGAAACUU AAAGAAAUUG ACGGAAGGGC ACCACCAGGG GUGGAGCCUG CGGCUUAAUU UGACUCAACA CGGGGAAACU CACCAGGUCC AGACACGAUG AGGAUUGACA GAUUGAGAGC UCUUUCUUGA UUUCGUGGGU GGUGGUGCAU GGCCGUUCUU AGUUGGUGGA GUGAUUUGUC UGCUUAAUUG CGAUAACGAA CGAGACCUUA ACCUGCUAAA UAGCCCGUAU UGCCUUGGCA GUACGCCGGC UUCUUAGAGG GACUAUCGGC UCAAGCCGAU GGAAGUUUGA GGCAAUAACA GGUCUGUGAU GCCCUUAGAU GUUCUGGGCC GCACGCGCGC UACACUGACA GAGCCAGCGA GUACUCCCUU GGCCGAGAGG CCCGGGUAAU CUUGUUAAAC UCUGUCGUGC UGGGGAUAGA GCAUUGCAAU UAUUGCUCUU CAACGAGGAA UCCCUAGUAA GCGCAAGUCA UCAGCUUGCG UUGAUUACGU CCCUGCCCUU UGUACACACC GCCCGUCGCU ACUACCGAUU GAACGGCUCA GUGAGGCUUU CGGACUGGCC CAGAGAGGUC GGCAACGACC ACUCAGGGCC GGAAAGUUAU CCAAACUCGG UCGUUUAGAG GAAGUAAAAG UCGUAACAAG GUCUCCGUAG GUGAACCUGC GGAGGGAUCA UUAAUGAGUU ACCACAACUC CCAAACCCAU UGUGAACCUA CCCUUCACGU UGCUUCGGCG GGUCGGGCGC UGUGCCGCCC CUCCGGGCGA CCCGGGGCUC CCCAAAGGCC CCGGGCCCGC CGCCCGCCGG AGGUACGCAA ACUCUUGUUC AUUGUACGGC CUCUCUGAGU GAAGUACUGA AUAAGUCA

• Mass: Theoretical: 827.801812 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #52: nucleic-acid, U3 snoRNA

Nucleic-acid

Name: U3 snoRNA / Class: RNA / Structure: OTHER / Synthetic: No
Sequence:

AGCGACAAUA CUUCAGAGAA UCAUUUCUAU AGUAGUUGUC CUCUCUUGUG UUUCCUAAAG GAGCCACAGA UCCCACCCGG GUUGAUGAAC GAGAUCCUCG GCGCCCAACA GUGAGGUCCA UUAUUUACUC UCGCUCUACC UGCAAAGGUG GCGGUCGCGU GCCUCGUCUC GCGGCUGUAU AGAGAGUGGC GAUGAUCUGU ACCCCGGCUU UCCUGAGGUC UUGCCUUCGG GCGCUCAGGC GGGGUGGGUG UCGAUGGAAG UCUGACCGGC CAUU

• Mass: Theoretical: 87.992648 kDa
• Source: Species: Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719) (fungus)

Component #53: ligand, ZINC ION

• Ligand: Name: ZINC ION / Number of Copies: 1 / Recombinant expression: No
• Mass: Theoretical: 6.540905 MDa

Experimental details

Sample preparation

• Specimen: Specimen state: particle / Method: cryo EM
• Sample solution: pH: 7.5
• Vitrification: Cryogen name: ETHANE

Electron microscopy imaging

• Experimental equipment: Model: Titan Krios / Image courtesy: FEI Company
• Imaging: Microscope: FEI TITAN KRIOS
• Electron gun: Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 2.4 e/Ų / Illumination mode: FLOOD BEAM
• Lens: Imaging mode: BRIGHT FIELD
• Specimen Holder: Model: OTHER
• Camera: Detector: FEI FALCON II (4k x 4k)

Image processing

• Processing: Method: single particle reconstruction / Number of projections: 231121
• 3D reconstruction: Software: RELION / Resolution: 3.2 Å / Resolution method: FSC 0.143 CUT-OFF

Atomic model buiding

Output model

5oql