PDB-7ajt: Cryo-EM structure of the 90S-exosome super-complex (state Pre-A1-...

Basic information

• Entry: Database: PDB / ID: 7ajt
• Title: Cryo-EM structure of the 90S-exosome super-complex (state Pre-A1-exosome)

Components

• (40S ribosomal protein ...) x 17
• (Exosome complex component ...) x 9
• (Nucleolar complex protein ...) x 2
• (Nucleolar protein ...Nucleolus) x 2
• (Ribosomal RNA-processing protein ...) x 2
• (Ribosome biogenesis protein ...) x 3
• (U3 small nucleolar RNA-associated protein ...) x 17
• (U3 small nucleolar ribonucleoprotein protein ...) x 2
• (rRNA-processing protein ...) x 2
• 13 kDa ribonucleoprotein-associated protein
• 18S rRNA18S ribosomal RNA
• 5'ETS RNA
• ATP-dependent RNA helicase DOB1
• Bud site selection protein 21
• Essential nuclear protein 1
• Exosome complex exonuclease DIS3
• KRR1 small subunit processome component
• NET1-associated nuclear protein 1
• Periodic tryptophan protein 2
• Pre-rRNA-processing protein PNO1
• Protein BFR2
• Protein FAF1
• Protein SOF1
• RNA 3'-terminal phosphate cyclase-like protein
• RNA cytidine acetyltransferase
• RNA
• Regulator of rDNA transcription protein 14
• Ribosomal RNA small subunit methyltransferase NEP1
• Something about silencing protein 10
• U3 snoRNA
• rRNA 2'-O-methyltransferase fibrillarin
• rRNA biogenesis protein RRP5

• Keywords: RIBOSOME / Ribosome biogenesis / Exosome / 90S pre-ribosome / A1 cleavage / Mtr4

Function / homology

Function:

rRNA acetylation involved in maturation of SSU-rRNA / rRNA cytidine N-acetyltransferase activity / nuclear mRNA surveillance of mRNA 3'-end processing / Butyrate Response Factor 1 (BRF1) binds and destabilizes mRNA / Tristetraprolin (TTP, ZFP36) binds and destabilizes mRNA / TRAMP complex / mRNA modification / Noc4p-Nop14p complex / mRNA decay by 3' to 5' exoribonuclease / U1 snRNA 3'-end processing / nuclear polyadenylation-dependent CUT catabolic process / nuclear polyadenylation-dependent mRNA catabolic process / U5 snRNA 3'-end processing / regulatory ncRNA 3'-end processing / tRNA acetylation / box H/ACA snoRNA binding / regulation of ribosomal protein gene transcription by RNA polymerase II / cytoplasmic exosome (RNase complex) / TRAMP-dependent tRNA surveillance pathway / rRNA small subunit pseudouridine methyltransferase Nep1 / t-UTP complex / RNA fragment catabolic process / CUT catabolic process / CURI complex / UTP-C complex / U4 snRNA 3'-end processing / rRNA 2'-O-methylation / nuclear polyadenylation-dependent rRNA catabolic process / Pwp2p-containing subcomplex of 90S preribosome / nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay / : / poly(A)-dependent snoRNA 3'-end processing / exosome (RNase complex) / endonucleolytic cleavage in ITS1 upstream of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / nuclear exosome (RNase complex) / box C/D sno(s)RNA binding / histone H2AQ104 methyltransferase activity / nuclear microtubule / Mpp10 complex / snoRNA guided rRNA 2'-O-methylation / rRNA (pseudouridine) methyltransferase activity / nuclear-transcribed mRNA catabolic process, non-stop decay / exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / : / regulation of rRNA processing / endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / rRNA modification / 3'-5' RNA helicase activity / septum digestion after cytokinesis / snRNA binding / positive regulation of RNA binding / SUMOylation of RNA binding proteins / box C/D sno(s)RNA 3'-end processing / rRNA catabolic process / tRNA export from nucleus / regulation of transcription by RNA polymerase I / nuclear mRNA surveillance / endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / rDNA heterochromatin / rRNA methyltransferase activity / nonfunctional rRNA decay / positive regulation of rRNA processing / box C/D methylation guide snoRNP complex / rRNA base methylation / single-stranded telomeric DNA binding / rRNA primary transcript binding / poly(A) binding / 90S preribosome assembly / sno(s)RNA-containing ribonucleoprotein complex / U4 snRNA binding / Hydrolases; Acting on ester bonds; Endoribonucleases producing 5'-phosphomonoesters / protein localization to nucleolus / O-methyltransferase activity / mTORC1-mediated signalling / RNA catabolic process / Protein hydroxylation / rRNA methylation / poly(U) RNA binding / U3 snoRNA binding / : / poly(A)+ mRNA export from nucleus / positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay / precatalytic spliceosome / Formation of the ternary complex, and subsequently, the 43S complex / Translation initiation complex formation / Ribosomal scanning and start codon recognition / preribosome, small subunit precursor / maturation of 5.8S rRNA / rRNA metabolic process / snoRNA binding / establishment of cell polarity / positive regulation of transcription by RNA polymerase I / Major pathway of rRNA processing in the nucleolus and cytosol / SRP-dependent cotranslational protein targeting to membrane / 90S preribosome / mRNA catabolic process / GTP hydrolysis and joining of the 60S ribosomal subunit / Formation of a pool of free 40S subunits / nucleolar large rRNA transcription by RNA polymerase I

Domain/homology:

Regulator of rDNA transcription 14 / : / Regular of rDNA transcription protein 14 / Exosome complex component CSL4, N-terminal domain / Exosome complex exonuclease Rrp40, N-terminal / Exosome complex exonuclease Rrp40 N-terminal domain / Exosome complex exonuclease RRP44, S1 domain / S1 domain / RRP4, S1 domain / Exosome complex component RRP45 / Rrp40, S1 domain / : / Exosome complex component RRP40, S1 domain / Exosome complex component CSL4, C-terminal / Exosome complex component, N-terminal domain / Exosome complex component Csl4 / Exosome component EXOSC1/CSL4 / Exosome complex exonuclease RRP4 N-terminal region / Apoptosis-antagonizing transcription factor, C-terminal / AATF leucine zipper-containing domain / Protein AATF/Bfr2 / Apoptosis-antagonizing transcription factor, C-terminal / Apoptosis antagonizing transcription factor / PIN domain / : / NUC153 / Nucleolar protein 10/Enp2 / : / : / NUC153 domain / Exosome complex RNA-binding protein 1/RRP40/RRP4 / KH domain / U3 small nucleolar RNA-associated protein 8 / Rrp44-like cold shock domain / Utp8 family / Rrp44-like cold shock domain / rRNA biogenesis protein Rrp5 / : / : / : / KRR1 small subunit processome component, second KH domain / Dis3-like cold-shock domain 2 / Dis3-like cold-shock domain 2 (CSD2) / Possible tRNA binding domain / RNA cytidine acetyltransferase NAT10 / Possible tRNA binding domain / Helicase domain / tRNA(Met) cytidine acetyltransferase TmcA, N-terminal / TmcA/NAT10/Kre33 / Helicase / tRNA(Met) cytidine acetyltransferase TmcA, N-terminal / GNAT acetyltransferase 2 / Ribosomal RNA assembly KRR1 / U3 small nucleolar RNA-associated protein 20, N-terminal / U3 snoRNA associated / Nucleolar complex protein 4 / U3 small nucleolar RNA-associated protein 20, C-terminal / U3 small nucleolar RNA-associated protein 20, N-terminal / U3 snoRNA associated / U3 small nucleolar RNA-associated protein 20, C-terminal / rRNA-processing arch domain / Ribosomal RNA-processing protein Rrp9-like / Mtr4-like, beta-barrel domain / Ribonuclease II/R, conserved site / Ribonuclease II family signature. / Nucleolar protein 14 / Nop14-like family / Ribonuclease II/R / RNB domain / RNB / U3 small nucleolar RNA-associated protein 6 / rRNA-processing protein Fcf1, PIN domain / U3 small nucleolar RNA-associated protein 6 / NOL6/Upt22 / Small-subunit processome, Utp11 / Sof1-like protein / BING4, C-terminal domain / Fcf2 pre-rRNA processing, C-terminal / Nrap protein domain 1 / Nrap protein, domain 2 / Nrap protein, domain 3 / Nrap protein, domain 4 / Nrap protein, domain 5 / Nrap protein, domain 6 / Fcf2/DNTTIP2 / WD repeat-containing protein WDR46/Utp7 / : / Nrap protein domain 1 / Utp11 protein / Sof1-like domain / BING4CT (NUC141) domain / Fcf2 pre-rRNA processing / Nrap protein PAP/OAS-like domain / Nrap protein domain 3 / Nrap protein nucleotidyltransferase domain 4 / Nrap protein PAP/OAS1-like domain 5 / Nrap protein domain 6 / Exosome RNA helicase MTR4-like, stalk / BING4CT (NUC141) domain / rRNA-processing protein Fcf1/Utp23

Component:

GUANOSINE-5'-TRIPHOSPHATE / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / Small ribosomal subunit protein uS4A / Small ribosomal subunit protein uS15 / Small ribosomal subunit protein uS11A / Small ribosomal subunit protein uS8A / Small ribosomal subunit protein uS12A / Small ribosomal subunit protein eS24A / Small ribosomal subunit protein eS4A / Small ribosomal subunit protein eS6A / Small ribosomal subunit protein eS8A / Small ribosomal subunit protein uS17A / Small ribosomal subunit protein uS9A / Small ribosomal subunit protein uS13A / rRNA 2'-O-methyltransferase fibrillarin / Exosome complex component RRP43 / Ribosomal RNA-processing protein 7 / KRR1 small subunit processome component / Periodic tryptophan protein 2 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein eS7A / U3 small nucleolar ribonucleoprotein protein IMP3 / Small ribosomal subunit protein eS1A / Protein SOF1 / U3 small nucleolar RNA-associated protein 11 / U3 small nucleolar RNA-associated protein 20 / Small ribosomal subunit protein eS27A / Ribosome biogenesis protein UTP30 / Essential nuclear protein 1 / Exosome complex component RRP4 / U3 small nucleolar RNA-associated protein 9 / 13 kDa ribonucleoprotein-associated protein / U3 small nucleolar RNA-associated protein 7 / U3 small nucleolar RNA-associated protein 18 / Regulator of rDNA transcription protein 14 / Protein FAF1 / U3 small nucleolar RNA-associated protein 10 / Exosome complex component SKI6 / ATP-dependent RNA helicase DOB1 / U3 small nucleolar RNA-associated protein MPP10 / Ribosome biogenesis protein ENP2 / Exosome complex component MTR3 / U3 small nucleolar RNA-associated protein 22 / Exosome complex component RRP46 / U3 small nucleolar RNA-associated protein 8 / Exosome complex component CSL4 / RNA cytidine acetyltransferase / U3 small nucleolar ribonucleoprotein protein IMP4 / U3 small nucleolar RNA-associated protein 6 / NET1-associated nuclear protein 1 / U3 small nucleolar RNA-associated protein 5 / U3 small nucleolar RNA-associated protein 15 / U3 small nucleolar RNA-associated protein 14 / rRNA biogenesis protein RRP5 / rRNA-processing protein FCF1 / Exosome complex component RRP45 / U3 small nucleolar RNA-associated protein 13 / U3 small nucleolar RNA-associated protein 21 / Ribosomal RNA small subunit methyltransferase NEP1 / Ribosomal RNA-processing protein 9 / Nucleolar complex protein 4 / Protein BFR2 / U3 small nucleolar RNA-associated protein 4 / RNA 3'-terminal phosphate cyclase-like protein / Exosome complex exonuclease DIS3 / Exosome complex component RRP40 / Bud site selection protein 21 / Ribosome biogenesis protein BMS1 / rRNA-processing protein FCF2 / Something about silencing protein 10 / U3 small nucleolar RNA-associated protein 12 / Exosome complex component RRP42 / Nucleolar protein 56 / Nucleolar protein 58 / Small ribosomal subunit protein eS28A / Nucleolar complex protein 14 / Pre-rRNA-processing protein PNO1

• Biological species: Saccharomyces cerevisiae (brewer's yeast); Saccharomyces cerevisiae S288C (yeast)
• Method: ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 4.6 Å
• Authors: Cheng, J. / Lau, B. / Flemming, D. / Venuta, G.L. / Berninghausen, O. / Beckmann, R. / Hurt, E.
• Citation: Journal: Mol Cell / Year: 2021; Title: Structure of the Maturing 90S Pre-ribosome in Association with the RNA Exosome.; Authors: Benjamin Lau / Jingdong Cheng / Dirk Flemming / Giuseppe La Venuta / Otto Berninghausen / Roland Beckmann / Ed Hurt / ; Abstract: Ribosome assembly is catalyzed by numerous trans-acting factors and coupled with irreversible pre-rRNA processing, driving the pathway toward mature ribosomal subunits. One decisive step early in this progression is removal of the 5' external transcribed spacer (5'-ETS), an RNA extension at the 18S rRNA that is integrated into the huge 90S pre-ribosome structure. Upon endo-nucleolytic cleavage at an internal site, A, the 5'-ETS is separated from the 18S rRNA and degraded. Here we present biochemical and cryo-electron microscopy analyses that depict the RNA exosome, a major 3'-5' exoribonuclease complex, in a super-complex with the 90S pre-ribosome. The exosome is docked to the 90S through its co-factor Mtr4 helicase, a processive RNA duplex-dismantling helicase, which strategically positions the exosome at the base of 5'-ETS helices H9-H9', which are dislodged in our 90S-exosome structures. These findings suggest a direct role of the exosome in structural remodeling of the 90S pre-ribosome to drive eukaryotic ribosome synthesis.

History

Deposition	Sep 29, 2020	Deposition site: PDBE / Processing site: PDBE
Revision 1.0	Dec 30, 2020	Provider: repository / Type: Initial release
Revision 1.1	Feb 3, 2021	Group: Database references / Category: citation Item: _citation.journal_volume / _citation.page_first / _citation.year

Assembly

Deposited unit

CA: rRNA 2'-O-methyltransferase fibrillarin

DA: 40S ribosomal protein S1-A

JA: RNA cytidine acetyltransferase

UA: Periodic tryptophan protein 2

CB: rRNA 2'-O-methyltransferase fibrillarin

JB: RNA cytidine acetyltransferase

UB: Nucleolar complex protein 14

UC: Something about silencing protein 10

UD: U3 small nucleolar RNA-associated protein 4

UE: U3 small nucleolar RNA-associated protein 5

UF: U3 small nucleolar RNA-associated protein 6

UG: U3 small nucleolar RNA-associated protein 7

UH: U3 small nucleolar RNA-associated protein 8

UI: U3 small nucleolar RNA-associated protein 9

UJ: U3 small nucleolar RNA-associated protein 10

UK: U3 small nucleolar RNA-associated protein 11

UL: U3 small nucleolar RNA-associated protein 12

UM: U3 small nucleolar RNA-associated protein 13

UN: U3 small nucleolar RNA-associated protein 14

UO: U3 small nucleolar RNA-associated protein 15

UP: Bud site selection protein 21

UQ: NET1-associated nuclear protein 1

UR: U3 small nucleolar RNA-associated protein 18

US: Nucleolar complex protein 4

UT: U3 small nucleolar RNA-associated protein 20

UU: U3 small nucleolar RNA-associated protein 21

UV: U3 small nucleolar RNA-associated protein 22

UX: rRNA-processing protein FCF1

UZ: Ribosome biogenesis protein UTP30

CD: Nucleolar protein 56

CE: Nucleolar protein 58

CF: 13 kDa ribonucleoprotein-associated protein

CG: 13 kDa ribonucleoprotein-associated protein

CH: Ribosomal RNA-processing protein 9

CI: U3 small nucleolar ribonucleoprotein protein IMP3

CJ: U3 small nucleolar ribonucleoprotein protein IMP4

CK: U3 small nucleolar RNA-associated protein MPP10

CL: Ribosome biogenesis protein BMS1

CM: RNA 3'-terminal phosphate cyclase-like protein

CN: Ribosomal RNA-processing protein 7

JC: Ribosome biogenesis protein ENP2

JF: Ribosomal RNA small subunit methyltransferase NEP1

JG: Ribosomal RNA small subunit methyltransferase NEP1

JH: Essential nuclear protein 1

JI: rRNA biogenesis protein RRP5

JJ: Pre-rRNA-processing protein PNO1

JK: Protein BFR2

JM: rRNA-processing protein FCF2

JN: Protein FAF1

JO: KRR1 small subunit processome component

JP: Protein SOF1

JQ: Regulator of rDNA transcription protein 14

DE: 40S ribosomal protein S4-A

DF: 40S ribosomal protein S5

DG: 40S ribosomal protein S6-A

DH: 40S ribosomal protein S7-A

DI: 40S ribosomal protein S8-A

DJ: 40S ribosomal protein S9-A

DL: 40S ribosomal protein S11-A

DN: 40S ribosomal protein S13

DO: 40S ribosomal protein S14-A

DQ: 40S ribosomal protein S16-A

DS: 40S ribosomal protein S18-A

DW: 40S ribosomal protein S22-A

DX: 40S ribosomal protein S23-A

DY: 40S ribosomal protein S24-A

Db: 40S ribosomal protein S27-A

Dc: 40S ribosomal protein S28-A

D2: 5'ETS RNA

D3: 18S rRNA

D4: U3 snoRNA

EA: RNA

EB: Exosome complex component RRP45

EC: Exosome complex component SKI6

ED: Exosome complex component RRP43

EE: Exosome complex component RRP46

EF: Exosome complex component RRP42

EG: Exosome complex component MTR3

EH: Exosome complex component RRP40

EI: Exosome complex component RRP4

EJ: Exosome complex component CSL4

EK: Exosome complex exonuclease DIS3

EN: ATP-dependent RNA helicase DOB1

hetero molecules

Summary:

• 5.39 MDa, 83 polymers

Component details:

	Theoretical mass	Number of molelcules
Total (without water)	5,393,945	90
Polymers	5,393,153	83
Non-polymers	792	7
Water	0

1

Summary:

• Idetical with deposited unit
• defined by author
• Evidence: microscopy

Symmetry operations:

Type	Name	Symmetry operation	Number
identity operation	1_555		1

Components

Protein , 19 types, 23 molecules CA CB JA JB UA UC UP UQ CF CG CM JF JG JH JI JJ JK JN JO JP JQ EK EN

#1: Protein

CA CB rRNA 2'-O-methyltransferase fibrillarin / Histone-glutamine methyltransferase / U3 small nucleolar RNA-associated protein NOP1 / U3 snoRNA-associated protein NOP1

Details:

Mass: 34525.418 Da / Num. of mol.: 2 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c
References: UniProt: P15646, Transferases; Transferring one-carbon groups; Methyltransferases

#3: Protein

JA JB RNA cytidine acetyltransferase / 18S rRNA cytosine acetyltransferase / Killer toxin-resistance protein 33 / Ribosomal RNA cytidine acetyltransferase 1

Details:

Mass: 119509.445 Da / Num. of mol.: 2 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c
References: UniProt: P53914, Transferases; Acyltransferases; Transferring groups other than aminoacyl groups

#4: Protein

UA Periodic tryptophan protein 2 / U three protein 1 / U3 small nucleolar RNA-associated protein 1 / U3 snoRNA-associated protein 1

Details:

Mass: 104097.039 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P25635

#6: Protein

UC Something about silencing protein 10 / U three protein 3 / U3 small nucleolar RNA-associated protein 3 / U3 snoRNA-associated protein 11

Details:

Mass: 70364.398 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q12136

#19: Protein

UP Bud site selection protein 21 / U three protein 16 / U3 small nucleolar RNA-associated protein 16 / U3 snoRNA-associated protein 16

Details:

Mass: 24431.016 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q08492

#20: Protein

UQ NET1-associated nuclear protein 1 / U three protein 17 / t-17 / U3 protein 17 required for transcription / U3 small nucleolar RNA-associated protein 17 / U3 snoRNA-associated protein 17

Details:

Mass: 101341.734 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q02931

#30: Protein

CF CG 13 kDa ribonucleoprotein-associated protein / Small nuclear ribonucleoprotein-associated protein 1

Details:

Mass: 13582.855 Da / Num. of mol.: 2 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P39990

#36: Protein

CM RNA 3'-terminal phosphate cyclase-like protein

Details:

Mass: 40220.559 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q08096

#39: Protein

JF JG Ribosomal RNA small subunit methyltransferase NEP1 / / 18S rRNA (pseudouridine(1189)-N1)-methyltransferase / 18S rRNA Psi1189 methyltransferase / Essential for mitotic growth protein 1 / Nucleolar essential protein 1

Details:

Mass: 27936.461 Da / Num. of mol.: 2 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c
References: UniProt: Q06287, rRNA small subunit pseudouridine methyltransferase Nep1

#40: Protein

JH Essential nuclear protein 1

Details:

Mass: 55207.422 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P38333

#41: Protein

JI rRNA biogenesis protein RRP5 / Ribosomal RNA-processing protein 5 / U3 small nucleolar RNA-associated protein RRP5 / U3 snoRNA-associated protein RRP5

Details:

Mass: 193411.422 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q05022

#42: Protein

JJ Pre-rRNA-processing protein PNO1 / Partner of NOB1 / Ribosomal RNA-processing protein 20

Details:

Mass: 30380.623 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q99216

#43: Protein

JK Protein BFR2 / Brefeldin A resistance protein 2

Details:

Mass: 61285.039 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q06631

#45: Protein

JN Protein FAF1 / Forty S assembly factor

Details:

Mass: 38961.512 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P40546

#46: Protein

JO KRR1 small subunit processome component / / KRR-R motif-containing protein 1 / Ribosomal RNA assembly protein KRR1

Details:

Mass: 37226.254 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P25586

#47: Protein

JP Protein SOF1 / U3 small nucleolar RNA-associated protein SOF1 / U3 snoRNA-associated protein SOF1

Details:

Mass: 56888.918 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P33750

#48: Protein

JQ Regulator of rDNA transcription protein 14

Details:

Mass: 23898.289 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P40470

#78: Protein

EK Exosome complex exonuclease DIS3 / Chromosome disjunction protein 3 / Ribosomal RNA-processing protein 44

Details:

Mass: 113855.766 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c
References: UniProt: Q08162, Hydrolases; Acting on ester bonds; Exoribonucleases producing 5'-phosphomonoesters, Hydrolases; Acting on ester bonds; Endoribonucleases producing 5'-phosphomonoesters

#79: Protein

EN ATP-dependent RNA helicase DOB1 / mRNA transport regulator MTR4

Details:

Mass: 122260.094 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P47047, RNA helicase

40S ribosomal protein ... , 17 types, 17 molecules DA DE DF DG DH DI DJ DL DN DO DQ DS DW DX DY Db Dc

#2: Protein

DA 40S ribosomal protein S1-A / Ribosome / RP10A / Small ribosomal subunit protein eS1-A

Details:

Mass: 28798.467 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P33442

#49: Protein

DE 40S ribosomal protein S4-A / Ribosome / RP5 / S7 / Small ribosomal subunit protein eS4-A / YS6

Details:

Mass: 29469.330 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P0CX35

#50: Protein

DF 40S ribosomal protein S5 / / RP14 / S2 / Small ribosomal subunit protein uS7 / YS8

Details:

Mass: 25072.600 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P26783

#51: Protein

DG 40S ribosomal protein S6-A / Ribosome / RP9 / S10 / Small ribosomal subunit protein eS6-A / YS4

Details:

Mass: 27054.486 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P0CX37

#52: Protein

DH 40S ribosomal protein S7-A / Ribosome / RP30 / RP40 / Small ribosomal subunit protein eS7-A

Details:

Mass: 21658.209 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P26786

#53: Protein

DI 40S ribosomal protein S8-A / Ribosome / RP19 / S14 / Small ribosomal subunit protein eS8-A / YS9

Details:

Mass: 22537.803 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P0CX39

#54: Protein

DJ 40S ribosomal protein S9-A / Ribosome / RP21 / S13 / Small ribosomal subunit protein uS4-A / YP28 / YS11

Details:

Mass: 22487.893 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: O13516

#55: Protein

DL 40S ribosomal protein S11-A / Ribosome / RP41 / S18 / Small ribosomal subunit protein uS17-A / YS12

Details:

Mass: 17785.934 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P0CX47

#56: Protein

DN 40S ribosomal protein S13 / / S27a / Small ribosomal subunit protein uS15 / YS15

Details:

Mass: 17059.945 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P05756

#57: Protein

DO 40S ribosomal protein S14-A / Ribosome / RP59A / Small ribosomal subunit protein uS11-A

Details:

Mass: 14562.655 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P06367

#58: Protein

DQ 40S ribosomal protein S16-A / Ribosome / RP61R / Small ribosomal subunit protein uS9-A

Details:

Mass: 15877.490 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P0CX51

#59: Protein

DS 40S ribosomal protein S18-A / Ribosome / Small ribosomal subunit protein uS13-A

Details:

Mass: 17071.641 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P0CX55

#60: Protein

DW 40S ribosomal protein S22-A / Ribosome / RP50 / S24 / Small ribosomal subunit protein uS8-A / YP58 / YS22

Details:

Mass: 14650.062 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P0C0W1

#61: Protein

DX 40S ribosomal protein S23-A / Ribosome / RP37 / S28 / Small ribosomal subunit protein uS12-A / YS14

Details:

Mass: 16073.896 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P0CX29

#62: Protein

DY 40S ribosomal protein S24-A / Ribosome / RP50 / Small ribosomal subunit protein eS24-A

Details:

Mass: 15362.848 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P0CX31

#63: Protein

Db 40S ribosomal protein S27-A / Ribosome / RP61 / Small ribosomal subunit protein eS27-A / YS20

Details:

Mass: 8893.391 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P35997

#64: Protein

Dc 40S ribosomal protein S28-A / Ribosome / S33 / Small ribosomal subunit protein eS28-A / YS27

Details:

Mass: 7605.847 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q3E7X9

Nucleolar complex protein ... , 2 types, 2 molecules UB US

#5: Protein

UB Nucleolar complex protein 14 / U three protein 2 / U3 small nucleolar RNA-associated protein 2 / U3 snoRNA-associated protein 2

Details:

Mass: 94463.195 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q99207

#22: Protein

US Nucleolar complex protein 4 / U three protein 19 / U3 small nucleolar RNA-associated protein 19 / U3 snoRNA-associated protein 19

Details:

Mass: 63707.844 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q06512

U3 small nucleolar RNA-associated protein ... , 17 types, 17 molecules UD UE UF UG UH UI UJ UK UL UM UN UO UR UT UU UV CK

#7: Protein

UD U3 small nucleolar RNA-associated protein 4 / U3 snoRNA-associated protein 4 / U three protein 4 / U3 protein 4 required for transcription / t-UTP4

Details:

Mass: 87909.242 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q06679

#8: Protein

UE U3 small nucleolar RNA-associated protein 5 / U3 snoRNA-associated protein 5 / U three protein 5 / U3 protein 5 required for transcription / t-UTP5

Details:

Mass: 72079.445 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q04177

#9: Protein

UF U3 small nucleolar RNA-associated protein 6 / U3 snoRNA-associated protein 6 / U three protein 6

Details:

Mass: 52495.277 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q02354

#10: Protein

UG U3 small nucleolar RNA-associated protein 7 / U3 snoRNA-associated protein 7 / U three protein 7

Details:

Mass: 62418.570 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P40055

#11: Protein

UH U3 small nucleolar RNA-associated protein 8 / U3 snoRNA-associated protein 8 / U three protein 8 / U3 protein 8 required for transcription / t-UTP8

Details:

Mass: 80269.648 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P53276

#12: Protein

UI U3 small nucleolar RNA-associated protein 9 / U3 snoRNA-associated protein 9 / U three protein 9 / U3 protein 9 required for transcription / t-UTP9

Details:

Mass: 65347.254 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P38882

#13: Protein

UJ U3 small nucleolar RNA-associated protein 10 / U3 snoRNA-associated protein 10 / U three protein 10 / U3 protein 10 required for transcription / t-UTP10

Details:

Mass: 200298.984 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P42945

#14: Protein

UK U3 small nucleolar RNA-associated protein 11 / U3 snoRNA-associated protein 11 / U three protein 11

Details:

Mass: 29806.348 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P34247

#15: Protein

UL U3 small nucleolar RNA-associated protein 12 / U3 snoRNA-associated protein 12 / DOM34-interacting protein 2 / U three protein 12

Details:

Mass: 106481.133 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q12220

#16: Protein

UM U3 small nucleolar RNA-associated protein 13 / U3 snoRNA-associated protein 13 / U three protein 13

Details:

Mass: 91132.562 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q05946

#17: Protein

UN U3 small nucleolar RNA-associated protein 14 / U3 snoRNA-associated protein 14 / U three protein 14

Details:

Mass: 103189.750 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q04500

#18: Protein

UO U3 small nucleolar RNA-associated protein 15 / U3 snoRNA-associated protein 15 / U three protein 15 / U3 protein 15 required for transcription / t-UTP15

Details:

Mass: 57765.289 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q04305

#21: Protein

UR U3 small nucleolar RNA-associated protein 18 / U3 snoRNA-associated protein 18 / U three protein 18

Details:

Mass: 66494.250 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P40362

#23: Protein

UT U3 small nucleolar RNA-associated protein 20 / U3 snoRNA-associated protein 20 / U three protein 20

Details:

Mass: 287915.500 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P35194

#24: Protein

UU U3 small nucleolar RNA-associated protein 21 / U3 snoRNA-associated protein 21 / U three protein 21

Details:

Mass: 104927.844 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q06078

#25: Protein

UV U3 small nucleolar RNA-associated protein 22 / U3 snoRNA-associated protein 22 / U three protein 22

Details:

Mass: 140660.141 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P53254

#34: Protein

CK U3 small nucleolar RNA-associated protein MPP10 / U3 snoRNA-associated protein MPP10 / M phase phosphoprotein 10

Details:

Mass: 67042.492 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P47083

RRNA-processing protein ... , 2 types, 2 molecules UX JM

#26: Protein

UX rRNA-processing protein FCF1 / FAF1-copurifying factor 1

Details:

Mass: 21650.729 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q05498

#44: Protein

JM rRNA-processing protein FCF2 / FAF1 copurifying factor 2

Details:

Mass: 25689.240 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q12035

Ribosome biogenesis protein ... , 3 types, 3 molecules UZ CL JC

#27: Protein

UZ Ribosome biogenesis protein UTP30 / / U3 snoRNP-associated protein UTP30

Details:

Mass: 31668.939 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P36144

#35: Protein

CL Ribosome biogenesis protein BMS1 /

Details:

Mass: 135792.281 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q08965

#38: Protein

JC Ribosome biogenesis protein ENP2 / / Essential nuclear protein 2

Details:

Mass: 81864.172 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P48234

Nucleolar protein ... , 2 types, 2 molecules CD CE

#28: Protein

CD Nucleolar protein 56 / Nucleolus / Ribosome biosynthesis protein SIK1 / Suppressor of I kappa b protein 1

Details:

Mass: 56961.152 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q12460

#29: Protein

CE Nucleolar protein 58 / Nucleolus / Nucleolar protein 5

Details:

Mass: 57060.344 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q12499

Ribosomal RNA-processing protein ... , 2 types, 2 molecules CH CN

#31: Protein

CH Ribosomal RNA-processing protein 9

Details:

Mass: 65146.969 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q06506

#37: Protein

CN Ribosomal RNA-processing protein 7

Details:

Mass: 34526.441 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P25368

U3 small nucleolar ribonucleoprotein protein ... , 2 types, 2 molecules CI CJ

#32: Protein

CI U3 small nucleolar ribonucleoprotein protein IMP3 / U3 snoRNP protein IMP3 / Interacting with MPP10 protein 3

Details:

Mass: 21928.529 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P32899

#33: Protein

CJ U3 small nucleolar ribonucleoprotein protein IMP4 / U3 snoRNP protein IMP4 / Interacting with MPP10 protein 4

Details:

Mass: 33536.168 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P53941

RNA chain , 4 types, 4 molecules D2 D3 D4 EA

#65: RNA chain

D2 5'ETS RNA

Details:

Mass: 225543.094 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae S288C (yeast)

#66: RNA chain

D3 18S rRNA / 18S ribosomal RNA

Details:

Mass: 582381.688 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae S288C (yeast)

#67: RNA chain

D4 U3 snoRNA

Details:

Mass: 106503.258 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae S288C (yeast)

#68: RNA chain

EA RNA /

Details:

Mass: 6851.971 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae S288C (yeast)

Exosome complex component ... , 9 types, 9 molecules EB EC ED EE EF EG EH EI EJ

#69: Protein

EB Exosome complex component RRP45 / / Ribosomal RNA-processing protein 45

Details:

Mass: 34001.859 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q05636

#70: Protein

EC Exosome complex component SKI6 / / Extracellular mutant protein 20 / Ribosomal RNA-processing protein 41 / Superkiller protein 6

Details:

Mass: 27599.727 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P46948

#71: Protein

ED Exosome complex component RRP43 / / Ribosomal RNA-processing protein 43

Details:

Mass: 44093.000 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P25359

#72: Protein

EE Exosome complex component RRP46 / / Ribosomal RNA-processing protein 46

Details:

Mass: 24430.193 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P53256

#73: Protein

EF Exosome complex component RRP42 / / Ribosomal RNA-processing protein 42

Details:

Mass: 29294.398 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / Gene: RRP42, YDL111C
Production host: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
References: UniProt: Q12277

#74: Protein

EG Exosome complex component MTR3 / / mRNA transport regulator 3

Details:

Mass: 27589.961 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P48240

#75: Protein

EH Exosome complex component RRP40 / / Ribosomal RNA-processing protein 40

Details:

Mass: 26583.354 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: Q08285

#76: Protein

EI Exosome complex component RRP4 / / Ribosomal RNA-processing protein 4

Details:

Mass: 39470.176 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P38792

#77: Protein

EJ Exosome complex component CSL4 / / CEP1 synthetic lethal protein 4

Details:

Mass: 31619.279 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Source: (natural) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
Strain: ATCC 204508 / S288c / References: UniProt: P53859

Non-polymers , 3 types, 7 molecules

#80: Chemical

UX-201 Db-101 EK-1102 ChemComp-ZN / ZINC ION

Details:

Mass: 65.409 Da / Num. of mol.: 3 / Source method: obtained synthetically / Formula: Zn

#81: Chemical

UX-202 CL-2002 EK-1101 ChemComp-MG / MAGNESIUM ION

Details:

Mass: 24.305 Da / Num. of mol.: 3 / Source method: obtained synthetically / Formula: Mg

#82: Chemical

CL-2001 ChemComp-GTP / GUANOSINE-5'-TRIPHOSPHATE / Guanosine triphosphate

Details:

Mass: 523.180 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C₁₀H₁₆N₅O₁₄P₃ / Comment: GTP, energy-carrying molecule*YM

Details

• Has ligand of interest: N

Experimental details

Experiment

• Experiment: Method: ELECTRON MICROSCOPY
• EM experiment: Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

Sample preparation

• Component: Name: 90S-exosome super-complex in state Pre-A1-exosome / Type: RIBOSOME / Entity ID: #1-#79 / Source: NATURAL
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Buffer solution: pH: 7.4
• Specimen: Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
• Vitrification: Cryogen name: ETHANE

Electron microscopy imaging

• Experimental equipment: Model: Titan Krios / Image courtesy: FEI Company
• Microscopy: Model: FEI TITAN KRIOS
• Electron gun: Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
• Electron lens: Mode: BRIGHT FIELDBright-field microscopy
• Image recording: Electron dose: 44 e/Ų / Film or detector model: GATAN K2 SUMMIT (4k x 4k)

Processing

• EM software: Name: CTFFIND / Category: CTF correction
• CTF correction: Type: PHASE FLIPPING AND AMPLITUDE CORRECTION
• 3D reconstruction: Resolution: 4.6 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 6024 / Symmetry type: POINT