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- PDB-7rr5: Structure of ribosomal complex bound with Rbg1/Tma46 -

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Basic information

Entry
Database: PDB / ID: 7rr5
TitleStructure of ribosomal complex bound with Rbg1/Tma46
Components
  • (40S ribosomal protein ...) x 19
  • (60S ribosomal protein ...) x 31
  • 18S rRNA18S ribosomal RNA
  • 25S rRNA
  • 5.8S rRNA5.8S ribosomal RNA
  • 5S rRNA5S ribosomal RNA
  • A-tRNA
  • Eukaryotic translation initiation factor 5A
  • Guanine nucleotide-binding protein subunit beta-like protein
  • P-tRNA
  • RPL10 isoform 1
  • RPL11B isoform 1
  • RPL12A isoform 1
  • RPL24A isoform 1
  • RPL29 isoform 1
  • RPL3 isoform 1
  • RPL32 isoform 1
  • RPL38 isoform 1
  • RPL4A isoform 1
  • RPL5 isoform 1
  • RPP0 isoform 1
  • RPS15 isoform 1
  • RPS1A isoform 1
  • RPS2 isoform 1
  • RPS20 isoform 1
  • RPS22A isoform 1
  • RPS25A isoform 1
  • RPS26B isoform 1
  • RPS28A isoform 1
  • RPS29A isoform 1
  • RPS3 isoform 1
  • RPS8A isoform 1
  • Ribosomal protein L37
  • Ribosome-interacting GTPase 1
  • Rps5p
  • Translation machinery-associated protein 46
  • Ubiquitin-40S ribosomal protein S31
  • Ubiquitin-60S ribosomal protein L40
  • mRNAMessenger RNA
KeywordsRIBOSOME / Rbg1 / Tma46
Function / homology
Function and homology information


positive regulation of translational termination / positive regulation of translational elongation / ribosomal subunit / pre-mRNA 5'-splice site binding / Formation of the ternary complex, and subsequently, the 43S complex / Translation initiation complex formation / Ribosomal scanning and start codon recognition / Major pathway of rRNA processing in the nucleolus and cytosol / SRP-dependent cotranslational protein targeting to membrane / GTP hydrolysis and joining of the 60S ribosomal subunit ...positive regulation of translational termination / positive regulation of translational elongation / ribosomal subunit / pre-mRNA 5'-splice site binding / Formation of the ternary complex, and subsequently, the 43S complex / Translation initiation complex formation / Ribosomal scanning and start codon recognition / Major pathway of rRNA processing in the nucleolus and cytosol / SRP-dependent cotranslational protein targeting to membrane / GTP hydrolysis and joining of the 60S ribosomal subunit / Formation of a pool of free 40S subunits / endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / negative regulation of mRNA splicing, via spliceosome / L13a-mediated translational silencing of Ceruloplasmin expression / endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / translation elongation factor activity / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of LSU-rRNA / ribosomal large subunit biogenesis / translation initiation factor activity / cytosolic ribosome / macroautophagy / ribosomal small subunit assembly / rRNA processing / cytosolic small ribosomal subunit / ribosome binding / large ribosomal subunit / ribosome biogenesis / cytoplasmic translation / small ribosomal subunit / 5S rRNA binding / cytosolic large ribosomal subunit / rRNA binding / ribosome / structural constituent of ribosome / ribonucleoprotein complex / translation / GTP binding / RNA binding / zinc ion binding / metal ion binding / nucleus / cytosol / cytoplasm
Similarity search - Function
ZC3H15/TMA46 family, C-terminal / DRG Family Regulatory Proteins, Tma46 / GTP binding protein, second domain / C-terminal region of MMR_HSR1 domain / GTP1/OBG, conserved site / GTP1/OBG family signature. / Translation elongation factor, IF5A, hypusine site / Eukaryotic initiation factor 5A hypusine signature. / Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold / Translation elongation factor IF5A-like ...ZC3H15/TMA46 family, C-terminal / DRG Family Regulatory Proteins, Tma46 / GTP binding protein, second domain / C-terminal region of MMR_HSR1 domain / GTP1/OBG, conserved site / GTP1/OBG family signature. / Translation elongation factor, IF5A, hypusine site / Eukaryotic initiation factor 5A hypusine signature. / Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold / Translation elongation factor IF5A-like / Translation elongation factor, IF5A C-terminal / Eukaryotic elongation factor 5A hypusine, DNA-binding OB fold / TGS domain / Zinc finger, CCCH-type superfamily / zinc finger / 60S acidic ribosomal protein P0 / Zinc finger, CCCH-type / Zinc finger C3H1-type profile. / TGS domain profile. / TGS / TGS-like / OBG-type guanine nucleotide-binding (G) domain / OBG-type guanine nucleotide-binding (G) domain profile. / 50S ribosome-binding GTPase / GTP binding domain / : / Ribosomal protein L41 / Ribosomal protein L41 / Ribosomal protein S12e / 50S ribosomal protein L10, insertion domain superfamily / : / 60S ribosomal protein L10P, insertion domain / Insertion domain in 60S ribosomal protein L10P / Ribosomal protein S21e, conserved site / Ribosomal protein S26e / Ribosomal protein S26e superfamily / Ribosomal protein S19e, conserved site / S27a-like superfamily / Ribosomal protein S26e / Ribosomal protein L29e / Ribosomal protein S10, eukaryotic/archaeal / Ribosomal protein S25 / Ribosomal protein S26e signature. / Ribosomal protein S17e, conserved site / Ribosomal protein S2, eukaryotic / Ribosomal protein S30 / 40S ribosomal protein S29/30S ribosomal protein S14 type Z / Ribosomal protein S27a / Ribosomal protein S27a / Ribosomal L29e protein family / Ribosomal protein S21e / Ribosomal protein S21e superfamily / Ribosomal protein S21e / Ribosomal protein S3, eukaryotic/archaeal / Ribosomal protein S8e subdomain, eukaryotes / S25 ribosomal protein / Ribosomal protein L10e, conserved site / Ribosomal protein L10e / Ribosomal protein L27e, conserved site / Ribosomal protein S19A/S15e / Ribosomal protein S21e signature. / Ribosomal protein S30 / Ribosomal protein S3Ae, conserved site / Ribosomal protein S12e signature. / Ribosomal protein S17e / Ribosomal protein S17e-like superfamily / Ribosomal protein S27a / Ribosomal protein S2, eukaryotic/archaeal / Ribosomal protein S19e / Ribosomal_S19e / Ribosomal protein S5, eukaryotic/archaeal / Ribosomal protein S8e, conserved site / 40S ribosomal protein S11, N-terminal / 40S ribosomal protein S1/3, eukaryotes / Ribosomal protein S6, eukaryotic / Ribosomal protein L24e, conserved site / Ribosomal protein S7e / 40S ribosomal protein S4, C-terminal domain / Ribosomal protein L34e, conserved site / Eukaryotic Ribosomal Protein L27, KOW domain / Ribosomal protein S4e, N-terminal, conserved site / Ribosomal S17 / Ribosomal protein S19e signature. / Ribosomal protein L44e / Ribosomal protein L38e / Ribosomal protein L38e superfamily / Ribosomal protein L27e / Ribosomal protein L27e superfamily / Ribosomal protein L22e / Ribosomal protein L22e superfamily / Ribosomal protein S19e / Ribosomal protein S27, zinc-binding domain superfamily / Ribosomal L38e protein family / Ribosomal L22e protein family / Ribosomal protein L23/L25, N-terminal / 40S Ribosomal protein S10 / Ribosomal protein S17, archaeal/eukaryotic / Ribosomal protein S27 / Ribosomal protein S28e conserved site / Ribosomal protein S6/S6e/A/B/2, conserved site
Similarity search - Domain/homology
ASPARTIC ACID / : / : / : / : / : / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) ...ASPARTIC ACID / : / : / : / : / : / RNA / RNA (> 10) / RNA (> 100) / RNA (> 1000) / RPS5 isoform 1 / Small ribosomal subunit protein eS1 / RPS22A isoform 1 / 60S acidic ribosomal protein P0 / RPS31 isoform 1 / RPL38 isoform 1 / RPL10 isoform 1 / RPS29A isoform 1 / RPS20 isoform 1 / RPS2 isoform 1 / 60S ribosomal protein L29 / BJ4_G0051200.mRNA.1.CDS.1 / Eukaryotic translation initiation factor 5A / RPL24A isoform 1 / RPL11B isoform 1 / 40S ribosomal protein S25 / 40S ribosomal protein S26 / RPL5 isoform 1 / 40S ribosomal protein S8 / RPL32 isoform 1 / RPL12A isoform 1 / 40S ribosomal protein S3 / RPL4A isoform 1 / Large ribosomal subunit protein uL3 / RPS15 isoform 1 / RPS28A isoform 1 / BJ4_G0035820.mRNA.1.CDS.1 / 40S ribosomal protein S12 / 60S ribosomal protein L2-B / 40S ribosomal protein S13 / 60S ribosomal protein L31-A / 40S ribosomal protein S11-B / EM14S01-3B_G0023620.mRNA.1.CDS.1 / 60S ribosomal protein L25 / BJ4_G0018510.mRNA.1.CDS.1 / 40S ribosomal protein S4 / 40S ribosomal protein S14-B / 60S ribosomal protein L23-B / 60S ribosomal protein L16-A / 60S ribosomal protein L28 / 60S ribosomal protein L34-A / 40S ribosomal protein S10-A / 60S ribosomal protein L27 / 40S ribosomal protein S0 / 60S ribosomal protein L22-A / 40S ribosomal protein S30 / 60S ribosomal protein L18-B / 40S ribosomal protein S7 / 60S ribosomal protein L13 / 40S ribosomal protein S18-B / 40S ribosomal protein S6 / 60S ribosomal protein L39 / 40S ribosomal protein S24 / 40S ribosomal protein S23 / 60S ribosomal protein L42-B / 60S ribosomal protein L17-A / Ribosomal protein L37 / 60S ribosomal protein L6 / EM14S01-3B_G0023350.mRNA.1.CDS.1 / EM14S01-3B_G0022060.mRNA.1.CDS.1 / 40S ribosomal protein S19-A / EM14S01-3B_G0017920.mRNA.1.CDS.1 / 60S ribosomal protein L7-A / Ubiquitin / EM14S01-3B_G0041280.mRNA.1.CDS.1 / EM14S01-3B_G0018500.mRNA.1.CDS.1 / Large ribosomal subunit protein uL6A / Large ribosomal subunit protein uL24A / Large ribosomal subunit protein eL36A / Large ribosomal subunit protein eL15A / Small ribosomal subunit protein eS21A / Large ribosomal subunit protein eL20A / Large ribosomal subunit protein eL43A / Large ribosomal subunit protein eL19A / Small ribosomal subunit protein eS32A / Large ribosomal subunit protein eL30 / Large ribosomal subunit protein eL8A / Small ribosomal subunit protein eS27A / Large ribosomal subunit protein eL14A
Similarity search - Component
Biological speciesSaccharomyces cerevisiae (brewer's yeast)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.23 Å
AuthorsZeng, F. / Li, X. / Pires-Alves, M. / Chen, X. / Hawk, C.W. / Jin, H.
Funding support United States, 1items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01-GM120552 United States
CitationJournal: Cell Rep / Year: 2021
Title: Conserved heterodimeric GTPase Rbg1/Tma46 promotes efficient translation in eukaryotic cells.
Authors: Fuxing Zeng / Xin Li / Melissa Pires-Alves / Xin Chen / Christopher W Hawk / Hong Jin /
Abstract: Conserved developmentally regulated guanosine triphosphate (GTP)-binding proteins (Drgs) and their binding partner Drg family regulatory proteins (Dfrps) are important for embryonic development, ...Conserved developmentally regulated guanosine triphosphate (GTP)-binding proteins (Drgs) and their binding partner Drg family regulatory proteins (Dfrps) are important for embryonic development, cellular growth control, differentiation, and proliferation. Here, we report that the yeast Drg1/Dfrp1 ortholog Rbg1/Tma46 facilitates translational initiation, elongation, and termination by suppressing prolonged ribosome pausing. Consistent with the genome-wide observations, deletion of Rbg1 exacerbates the growth defect resulting from translation stalling, and Rbg1 stabilizes mRNAs against no-go decay. Furthermore, we provide a cryoelectron microscopy (cryo-EM) structure of the 80S ribosome bound with Rbg1/Tma46 that reveals the molecular interactions responsible for Rbg1/Tma46 function. The Rbg1 subunit binds to the GTPase association center of the ribosome and the A-tRNA, and the N-terminal zinc finger domain of the Tma46 subunit binds to the 40S, establishing an interaction critical for the ribosomal association. Our results answer the fundamental question of how a paused ribosome resumes translation and show that Drg1/Dfrp1 play a critical role in ensuring orderly translation.
History
DepositionAug 9, 2021Deposition site: RCSB / Processing site: RCSB
Revision 1.0Nov 10, 2021Provider: repository / Type: Initial release

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Structure visualization

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Assembly

Deposited unit
C1: 25S rRNA
C4: 5S rRNA
C3: 5.8S rRNA
LA: 60S ribosomal protein L2-B
LB: RPL3 isoform 1
LC: RPL4A isoform 1
LD: RPL5 isoform 1
LE: 60S ribosomal protein L6
LF: 60S ribosomal protein L7-A
LG: 60S ribosomal protein L8-A
LH: 60S ribosomal protein L9-A
LI: RPL10 isoform 1
LJ: RPL11B isoform 1
LL: 60S ribosomal protein L13
LM: 60S ribosomal protein L14-A
LN: 60S ribosomal protein L15-A
LO: 60S ribosomal protein L16-A
LP: 60S ribosomal protein L17-A
LQ: 60S ribosomal protein L18-B
LR: 60S ribosomal protein L19-A
LS: 60S ribosomal protein L20-A
LT: 60S ribosomal protein L21-A
LU: 60S ribosomal protein L22-A
LV: 60S ribosomal protein L23-B
LW: RPL24A isoform 1
LX: 60S ribosomal protein L25
LY: 60S ribosomal protein L26-A
LZ: 60S ribosomal protein L27
La: 60S ribosomal protein L28
Lb: RPL29 isoform 1
Lc: 60S ribosomal protein L30
Ld: 60S ribosomal protein L31-A
Le: RPL32 isoform 1
Lf: 60S ribosomal protein L33-A
Lg: 60S ribosomal protein L34-A
Lh: 60S ribosomal protein L35-A
Li: 60S ribosomal protein L36-A
Lj: Ribosomal protein L37
Lk: RPL38 isoform 1
Ll: 60S ribosomal protein L39
Lm: Ubiquitin-60S ribosomal protein L40
Ln: 60S ribosomal protein L41-A
Lo: 60S ribosomal protein L42-A
Lp: 60S ribosomal protein L43-A
P0: RPP0 isoform 1
P2: RPL12A isoform 1
C2: 18S rRNA
SA: 40S ribosomal protein S0
SB: RPS1A isoform 1
SC: RPS2 isoform 1
SD: RPS3 isoform 1
SE: 40S ribosomal protein S4
SF: Rps5p
SG: 40S ribosomal protein S6
SH: 40S ribosomal protein S7
SI: RPS8A isoform 1
SJ: 40S ribosomal protein S9-A
SK: 40S ribosomal protein S10-A
SL: 40S ribosomal protein S11-B
SM: 40S ribosomal protein S12
SN: 40S ribosomal protein S13
SO: 40S ribosomal protein S14-B
SP: RPS15 isoform 1
SQ: 40S ribosomal protein S16-A
SR: 40S ribosomal protein S17-A
SS: 40S ribosomal protein S18-B
ST: 40S ribosomal protein S19-A
SU: RPS20 isoform 1
SV: 40S ribosomal protein S21-A
SW: RPS22A isoform 1
SX: 40S ribosomal protein S23
SY: 40S ribosomal protein S24
SZ: RPS25A isoform 1
Sa: RPS26B isoform 1
Sb: 40S ribosomal protein S27-A
Sc: RPS28A isoform 1
Sd: RPS29A isoform 1
Se: 40S ribosomal protein S30
Sf: Ubiquitin-40S ribosomal protein S31
Sg: Guanine nucleotide-binding protein subunit beta-like protein
A: A-tRNA
P: P-tRNA
m: mRNA
5: Eukaryotic translation initiation factor 5A
R: Ribosome-interacting GTPase 1
T: Translation machinery-associated protein 46
L1: 60S ribosomal protein L1
hetero molecules


Theoretical massNumber of molelcules
Total (without water)3,339,370382
Polymers3,331,76387
Non-polymers7,608295
Water0
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: electron microscopy
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

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RNA chain , 7 types, 7 molecules C1C4C3C2APm

#1: RNA chain 25S rRNA


Mass: 1097493.875 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: GenBank: 834774822
#2: RNA chain 5S rRNA / 5S ribosomal RNA


Mass: 38951.105 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: GenBank: 1039024045
#3: RNA chain 5.8S rRNA / 5.8S ribosomal RNA


Mass: 50682.922 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: GenBank: 1267176496
#47: RNA chain 18S rRNA / 18S ribosomal RNA


Mass: 579761.938 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: GenBank: 1262303
#81: RNA chain A-tRNA


Mass: 24355.369 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast)
#82: RNA chain P-tRNA


Mass: 24445.512 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Details: Althrough the position 34 is G or A in NCBI database. But it can only be U base on the density. It might be a varient tRNA from the yeast.
Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: GenBank: 176436
#83: RNA chain mRNA / Messenger RNA


Mass: 5232.232 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast)

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60S ribosomal protein ... , 31 types, 31 molecules LALELFLGLHLLLMLNLOLPLQLRLSLTLULVLXLYLZLaLcLdLfLgLhLiLlLnLoLpL1

#4: Protein 60S ribosomal protein L2-B / Ribosome / BJ4_G0052790.mRNA.1.CDS.1 / BJ4_G0056090.mRNA.1.CDS.1 / EM14S01-3B_G0049790.mRNA.1.CDS.1 / HLJ1_ ...BJ4_G0052790.mRNA.1.CDS.1 / BJ4_G0056090.mRNA.1.CDS.1 / EM14S01-3B_G0049790.mRNA.1.CDS.1 / HLJ1_G0053940.mRNA.1.CDS.1 / HN1_G0053700.mRNA.1.CDS.1 / SX2_G0053690.mRNA.1.CDS.1 / XXYS1_4_G0052520.mRNA.1.CDS.1 / XXYS1_4_G0055700.mRNA.1.CDS.1 / Y55_G0050520.mRNA.1.CDS.1


Mass: 27463.574 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0Y8L2
#8: Protein 60S ribosomal protein L6 /


Mass: 20024.541 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1BJ04
#9: Protein 60S ribosomal protein L7-A / Ribosome


Mass: 27686.281 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6V8RJA7
#10: Protein 60S ribosomal protein L8-A / Ribosome / L4 / L4-2 / L7a-1 / Large ribosomal subunit protein eL8-A / Maintenance of killer protein 7 / RP6 / YL5


Mass: 28175.820 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P17076
#11: Protein 60S ribosomal protein L9-A / Ribosome / L8 / Large ribosomal subunit protein uL6-A / RP24 / YL11


Mass: 21605.061 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P05738
#14: Protein 60S ribosomal protein L13 /


Mass: 22604.164 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1AF71
#15: Protein 60S ribosomal protein L14-A / Ribosome / Large ribosomal subunit protein eL14-A


Mass: 15195.066 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P36105
#16: Protein 60S ribosomal protein L15-A / Ribosome / L13 / Large ribosomal subunit protein eL15-A / RP15R / YL10 / YP18


Mass: 24482.357 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P05748
#17: Protein 60S ribosomal protein L16-A / Ribosome / BJ4_G0055070.mRNA.1.CDS.1 / EM14S01-3B_G0052010.mRNA.1.CDS.1 / HLJ1_G0052810.mRNA.1.CDS.1 / HN1_ ...BJ4_G0055070.mRNA.1.CDS.1 / EM14S01-3B_G0052010.mRNA.1.CDS.1 / HLJ1_G0052810.mRNA.1.CDS.1 / HN1_G0052690.mRNA.1.CDS.1 / SX2_G0052670.mRNA.1.CDS.1 / XXYS1_4_G0054680.mRNA.1.CDS.1


Mass: 22247.227 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0ZD57
#18: Protein 60S ribosomal protein L17-A / Ribosome / BJ4_G0005750.mRNA.1.CDS.1 / EM14S01-3B_G0003030.mRNA.1.CDS.1 / HLJ1_G0003100.mRNA.1.CDS.1 / HN1_ ...BJ4_G0005750.mRNA.1.CDS.1 / EM14S01-3B_G0003030.mRNA.1.CDS.1 / HLJ1_G0003100.mRNA.1.CDS.1 / HN1_G0003070.mRNA.1.CDS.1 / SX2_G0003110.mRNA.1.CDS.1 / XXYS1_4_G0005910.mRNA.1.CDS.1 / Y55_G0003310.mRNA.1.CDS.1


Mass: 20589.518 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1BCL1
#19: Protein 60S ribosomal protein L18-B / Ribosome / BJ4_G0033900.mRNA.1.CDS.1 / EM14S01-3B_G0025830.mRNA.1.CDS.1 / HLJ1_G0009570.mRNA.1.CDS.1 / HN1_ ...BJ4_G0033900.mRNA.1.CDS.1 / EM14S01-3B_G0025830.mRNA.1.CDS.1 / HLJ1_G0009570.mRNA.1.CDS.1 / HN1_G0036520.mRNA.1.CDS.1 / SX2_G0009590.mRNA.1.CDS.1 / SX2_G0031330.mRNA.1.CDS.1 / XXYS1_4_G0011980.mRNA.1.CDS.1 / Y55_G0009820.mRNA.1.CDS.1 / Y55_G0036540.mRNA.1.CDS.1


Mass: 20609.252 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1A7F6
#20: Protein 60S ribosomal protein L19-A / Ribosome / L23 / Large ribosomal subunit protein eL19-A / RP15L / RP33 / YL14


Mass: 21762.316 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P0CX82
#21: Protein 60S ribosomal protein L20-A / Ribosome / L18a / Large ribosomal subunit protein eL20-A


Mass: 20478.852 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P0CX23
#22: Protein 60S ribosomal protein L21-A / Ribosome


Mass: 18279.266 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0YTI6
#23: Protein 60S ribosomal protein L22-A / Ribosome / BJ4_G0029820.mRNA.1.CDS.1 / EM14S01-3B_G0036880.mRNA.1.CDS.1 / HLJ1_G0027540.mRNA.1.CDS.1 / HN1_ ...BJ4_G0029820.mRNA.1.CDS.1 / EM14S01-3B_G0036880.mRNA.1.CDS.1 / HLJ1_G0027540.mRNA.1.CDS.1 / HN1_G0027300.mRNA.1.CDS.1 / SX2_G0027240.mRNA.1.CDS.1 / XXYS1_4_G0039430.mRNA.1.CDS.1 / Y55_G0027440.mRNA.1.CDS.1


Mass: 13711.359 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0ZZW6
#24: Protein 60S ribosomal protein L23-B / Ribosome / BJ4_G0004570.mRNA.1.CDS.1 / BJ4_G0015890.mRNA.1.CDS.1 / EM14S01-3B_G0012990.mRNA.1.CDS.1 / HLJ1_ ...BJ4_G0004570.mRNA.1.CDS.1 / BJ4_G0015890.mRNA.1.CDS.1 / EM14S01-3B_G0012990.mRNA.1.CDS.1 / HLJ1_G0013350.mRNA.1.CDS.1 / HN1_G0013410.mRNA.1.CDS.1 / SX2_G0001980.mRNA.1.CDS.1 / SX2_G0013350.mRNA.1.CDS.1 / Y55_G0001980.mRNA.1.CDS.1 / Y55_G0013520.mRNA.1.CDS.1


Mass: 14493.950 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0Z7E4
#26: Protein 60S ribosomal protein L25 / / BJ4_G0033830.mRNA.1.CDS.1 / HLJ1_G0036700.mRNA.1.CDS.1 / HN1_G0036450.mRNA.1.CDS.1 / SX2_G0031260. ...BJ4_G0033830.mRNA.1.CDS.1 / HLJ1_G0036700.mRNA.1.CDS.1 / HN1_G0036450.mRNA.1.CDS.1 / SX2_G0031260.mRNA.1.CDS.1 / Y55_G0036470.mRNA.1.CDS.1


Mass: 15787.612 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0YSM0
#27: Protein 60S ribosomal protein L26-A / Ribosome / L33 / Large ribosomal subunit protein uL24-A / YL33


Mass: 14265.784 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P05743
#28: Protein 60S ribosomal protein L27 /


Mass: 15568.360 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0ZQQ7
#29: Protein 60S ribosomal protein L28 / / BJ4_G0040060.mRNA.1.CDS.1 / EM14S01-3B_G0031990.mRNA.1.CDS.1 / HLJ1_G0032520.mRNA.1.CDS.1 / HN1_ ...BJ4_G0040060.mRNA.1.CDS.1 / EM14S01-3B_G0031990.mRNA.1.CDS.1 / HLJ1_G0032520.mRNA.1.CDS.1 / HN1_G0032350.mRNA.1.CDS.1 / SX2_G0037610.mRNA.1.CDS.1 / XXYS1_4_G0034590.mRNA.1.CDS.1


Mass: 16761.666 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0ZDK5
#31: Protein 60S ribosomal protein L30 / / L32 / Large ribosomal subunit protein eL30 / RP73 / YL38


Mass: 11430.364 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P14120
#32: Protein 60S ribosomal protein L31-A / Ribosome / BJ4_G0045320.mRNA.1.CDS.1 / EM14S01-3B_G0042370.mRNA.1.CDS.1 / HLJ1_G0043110.mRNA.1.CDS.1 / HN1_ ...BJ4_G0045320.mRNA.1.CDS.1 / EM14S01-3B_G0042370.mRNA.1.CDS.1 / HLJ1_G0043110.mRNA.1.CDS.1 / HN1_G0042950.mRNA.1.CDS.1 / SX2_G0043010.mRNA.1.CDS.1 / XXYS1_4_G0044940.mRNA.1.CDS.1 / Y55_G0042960.mRNA.1.CDS.1


Mass: 12980.158 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0YFR2
#34: Protein 60S ribosomal protein L33-A / Ribosome / EM14S01-3B_G0017920.mRNA.1.CDS.1 / HLJ1_G0022850.mRNA.1.CDS.1 / HN1_G0022890.mRNA.1.CDS.1 / SX2_ ...EM14S01-3B_G0017920.mRNA.1.CDS.1 / HLJ1_G0022850.mRNA.1.CDS.1 / HN1_G0022890.mRNA.1.CDS.1 / SX2_G0018420.mRNA.1.CDS.1 / XXYS1_4_G0020460.mRNA.1.CDS.1 / Y55_G0018560.mRNA.1.CDS.1


Mass: 12177.130 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1C3H0
#35: Protein 60S ribosomal protein L34-A / Ribosome / BJ4_G0003940.mRNA.1.CDS.1 / EM14S01-3B_G0001280.mRNA.1.CDS.1 / HLJ1_G0001330.mRNA.1.CDS.1 / HN1_ ...BJ4_G0003940.mRNA.1.CDS.1 / EM14S01-3B_G0001280.mRNA.1.CDS.1 / HLJ1_G0001330.mRNA.1.CDS.1 / HN1_G0001300.mRNA.1.CDS.1 / SX2_G0001340.mRNA.1.CDS.1 / XXYS1_4_G0004140.mRNA.1.CDS.1 / Y55_G0001350.mRNA.1.CDS.1


Mass: 13673.196 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0ZFW3
#36: Protein 60S ribosomal protein L35-A / Ribosome / EM14S01-3B_G0041280.mRNA.1.CDS.1 / HN1_G0041880.mRNA.1.CDS.1 / XXYS1_4_G0043840.mRNA.1.CDS.1 / Y55_ ...EM14S01-3B_G0041280.mRNA.1.CDS.1 / HN1_G0041880.mRNA.1.CDS.1 / XXYS1_4_G0043840.mRNA.1.CDS.1 / Y55_G0041890.mRNA.1.CDS.1


Mass: 13942.640 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A7I9BRN0
#37: Protein 60S ribosomal protein L36-A / Ribosome / L39 / Large ribosomal subunit protein eL36-A / YL39


Mass: 11151.259 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P05745
#40: Protein 60S ribosomal protein L39 /


Mass: 6358.640 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1ASX0
#42: Protein/peptide 60S ribosomal protein L41-A / Ribosome / L47 / Large ribosomal subunit protein eL41-A / YL41


Mass: 3354.243 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P0CX86
#43: Protein 60S ribosomal protein L42-A / Ribosome / BJ4_G0013440.mRNA.1.CDS.1 / EM14S01-3B_G0055510.mRNA.1.CDS.1 / HLJ1_G0010810.mRNA.1.CDS.1 / HLJ1_ ...BJ4_G0013440.mRNA.1.CDS.1 / EM14S01-3B_G0055510.mRNA.1.CDS.1 / HLJ1_G0010810.mRNA.1.CDS.1 / HLJ1_G0056520.mRNA.1.CDS.1 / HN1_G0010910.mRNA.1.CDS.1 / HN1_G0056250.mRNA.1.CDS.1 / SX2_G0010840.mRNA.1.CDS.1 / XXYS1_4_G0001900.mRNA.1.CDS.1 / Y55_G0011070.mRNA.1.CDS.1


Mass: 12246.658 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1B5X0
#44: Protein 60S ribosomal protein L43-A / Ribosome / L37a / Large ribosomal subunit protein eL43-A / YL35


Mass: 10112.952 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P0CX25
#87: Protein 60S ribosomal protein L1 /


Mass: 17889.996 Da / Num. of mol.: 1 / Source method: isolated from a natural source
Details: Only show the backbone of the protein due to the poor density
Source: (natural) Saccharomyces cerevisiae (brewer's yeast)

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Protein , 30 types, 30 molecules LBLCLDLILJLWLbLeLjLkLmP0P2SBSCSDSFSISPSUSWSZSaScSdSfSg5RT

#5: Protein RPL3 isoform 1


Mass: 43850.793 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q627
#6: Protein RPL4A isoform 1


Mass: 39159.125 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q3W0
#7: Protein RPL5 isoform 1


Mass: 33764.828 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q0W8
#12: Protein RPL10 isoform 1


Mass: 25410.465 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PUZ5
#13: Protein RPL11B isoform 1


Mass: 19785.719 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PYM2
#25: Protein RPL24A isoform 1


Mass: 17661.717 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PY83
#30: Protein RPL29 isoform 1


Mass: 6691.884 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PWR1
#33: Protein RPL32 isoform 1


Mass: 14809.441 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q1M9
#38: Protein Ribosomal protein L37 /


Mass: 9877.395 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1BIE7
#39: Protein RPL38 isoform 1


Mass: 8845.561 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PUL8
#41: Protein Ubiquitin-60S ribosomal protein L40


Mass: 14583.077 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6V8S9K0
#45: Protein RPP0 isoform 1


Mass: 33749.121 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PT43
#46: Protein RPL12A isoform 1 / RPL12B isoform 1


Mass: 17850.621 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q275
#49: Protein RPS1A isoform 1


Mass: 28798.467 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PRY4
#50: Protein RPS2 isoform 1


Mass: 27490.826 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PWF7
#51: Protein RPS3 isoform 1


Mass: 26542.789 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q3Q1
#53: Protein Rps5p


Mass: 25072.600 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A1L4AA68
#56: Protein RPS8A isoform 1 / RPS8B isoform 1


Mass: 22537.803 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q1H1
#63: Protein RPS15 isoform 1


Mass: 16031.907 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q6F2
#68: Protein RPS20 isoform 1


Mass: 13929.044 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PVE9
#70: Protein RPS22A isoform 1


Mass: 14650.062 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PSE9
#73: Protein RPS25A isoform 1


Mass: 12067.272 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PZ18
#74: Protein RPS26B isoform 1


Mass: 13480.886 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q0E8
#76: Protein RPS28A isoform 1


Mass: 7605.847 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q700
#77: Protein RPS29A isoform 1


Mass: 6675.723 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PV92
#79: Protein Ubiquitin-40S ribosomal protein S31


Mass: 17254.227 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PU37
#80: Protein Guanine nucleotide-binding protein subunit beta-like protein / EM14S01-3B_G0023350.mRNA.1.CDS.1 / Guanine nucleotide-binding protein subunit beta-like protein / ...EM14S01-3B_G0023350.mRNA.1.CDS.1 / Guanine nucleotide-binding protein subunit beta-like protein / HLJ1_G0019440.mRNA.1.CDS.1 / HN1_G0019400.mRNA.1.CDS.1 / SX2_G0023940.mRNA.1.CDS.1 / XXYS1_4_G0025910.mRNA.1.CDS.1


Mass: 34841.219 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1BKH8
#84: Protein Eukaryotic translation initiation factor 5A / eIF-5A


Mass: 17222.406 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PWZ9
#85: Protein Ribosome-interacting GTPase 1 / EM14S01-3B_G0048290.mRNA.1.CDS.1 / HLJ1_G0049100.mRNA.1.CDS.1 / HN1_G0048820.mRNA.1.CDS.1 / ...EM14S01-3B_G0048290.mRNA.1.CDS.1 / HLJ1_G0049100.mRNA.1.CDS.1 / HN1_G0048820.mRNA.1.CDS.1 / Ribosome-interacting GTPase 1 / SX2_G0048910.mRNA.1.CDS.1 / Y55_G0048900.mRNA.1.CDS.1


Mass: 45470.316 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Details: Chromasomally TAP tagged
Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast)
Gene: PACBIOSEQ_LOCUS31, PACBIOSEQ_LOCUS32, PACBIOSEQ_LOCUS33, PACBIOSEQ_LOCUS34, SCNYR20_0016002600, SCP684_0016002600
Production host: Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5PWT7
#86: Protein Translation machinery-associated protein 46 / BJ4_G0035820.mRNA.1.CDS.1


Mass: 39592.172 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q867

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40S ribosomal protein ... , 19 types, 19 molecules SASESGSHSJSKSLSMSNSOSQSRSSSTSVSXSYSbSe

#48: Protein 40S ribosomal protein S0 /


Mass: 28051.330 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0ZRP4
#52: Protein 40S ribosomal protein S4 /


Mass: 29469.330 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0Z3Q0
#54: Protein 40S ribosomal protein S6 /


Mass: 27054.486 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1AMY1
#55: Protein 40S ribosomal protein S7 /


Mass: 21658.209 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1ACT7
#57: Protein 40S ribosomal protein S9-A / Ribosome / EM14S01-3B_G0018500.mRNA.1.CDS.1 / HLJ1_G0023450.mRNA.1.CDS.1 / HN1_G0023480.mRNA.1.CDS.1 / XXYS1_4_ ...EM14S01-3B_G0018500.mRNA.1.CDS.1 / HLJ1_G0023450.mRNA.1.CDS.1 / HN1_G0023480.mRNA.1.CDS.1 / XXYS1_4_G0021040.mRNA.1.CDS.1 / Y55_G0019160.mRNA.1.CDS.1


Mass: 22487.893 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A7I9GPQ3
#58: Protein 40S ribosomal protein S10-A / Ribosome / BJ4_G0037630.mRNA.1.CDS.1 / EM14S01-3B_G0029550.mRNA.1.CDS.1 / HLJ1_G0040520.mRNA.1.CDS.1 / HN1_ ...BJ4_G0037630.mRNA.1.CDS.1 / EM14S01-3B_G0029550.mRNA.1.CDS.1 / HLJ1_G0040520.mRNA.1.CDS.1 / HN1_G0040350.mRNA.1.CDS.1 / SX2_G0035120.mRNA.1.CDS.1 / XXYS1_4_G0032110.mRNA.1.CDS.1 / Y55_G0040350.mRNA.1.CDS.1


Mass: 12757.445 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0ZM59
#59: Protein 40S ribosomal protein S11-B / Ribosome / BJ4_G0017130.mRNA.1.CDS.1 / EM14S01-3B_G0014240.mRNA.1.CDS.1 / EM14S01-3B_G0043020.mRNA.1.CDS.1 / ...BJ4_G0017130.mRNA.1.CDS.1 / EM14S01-3B_G0014240.mRNA.1.CDS.1 / EM14S01-3B_G0043020.mRNA.1.CDS.1 / HLJ1_G0014680.mRNA.1.CDS.1 / HLJ1_G0043980.mRNA.1.CDS.1 / SX2_G0014590.mRNA.1.CDS.1 / XXYS1_4_G0016810.mRNA.1.CDS.1 / XXYS1_4_G0045790.mRNA.1.CDS.1 / Y55_G0014780.mRNA.1.CDS.1


Mass: 17785.934 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0YMX6
#60: Protein 40S ribosomal protein S12 /


Mass: 15488.631 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6A5Q8I3
#61: Protein 40S ribosomal protein S13 / / BJ4_G0046510.mRNA.1.CDS.1 / HLJ1_G0044330.mRNA.1.CDS.1 / HN1_G0044100.mRNA.1.CDS.1 / SX2_G0044200. ...BJ4_G0046510.mRNA.1.CDS.1 / HLJ1_G0044330.mRNA.1.CDS.1 / HN1_G0044100.mRNA.1.CDS.1 / SX2_G0044200.mRNA.1.CDS.1 / Y55_G0044190.mRNA.1.CDS.1


Mass: 17059.945 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0YFM5
#62: Protein 40S ribosomal protein S14-B / Ribosome / BJ4_G0008710.mRNA.1.CDS.1 / EM14S01-3B_G0005790.mRNA.1.CDS.1 / HLJ1_G0006090.mRNA.1.CDS.1 / HN1_ ...BJ4_G0008710.mRNA.1.CDS.1 / EM14S01-3B_G0005790.mRNA.1.CDS.1 / HLJ1_G0006090.mRNA.1.CDS.1 / HN1_G0006160.mRNA.1.CDS.1 / SX2_G0006140.mRNA.1.CDS.1 / XXYS1_4_G0008590.mRNA.1.CDS.1


Mass: 14675.771 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0Z4W4
#64: Protein 40S ribosomal protein S16-A / Ribosome / BJ4_G0045230.mRNA.1.CDS.1 / EM14S01-3B_G0023620.mRNA.1.CDS.1 / EM14S01-3B_G0042280.mRNA.1.CDS.1 / ...BJ4_G0045230.mRNA.1.CDS.1 / EM14S01-3B_G0023620.mRNA.1.CDS.1 / EM14S01-3B_G0042280.mRNA.1.CDS.1 / HLJ1_G0043020.mRNA.1.CDS.1 / SX2_G0024190.mRNA.1.CDS.1 / SX2_G0042920.mRNA.1.CDS.1 / XXYS1_4_G0026180.mRNA.1.CDS.1 / Y55_G0024380.mRNA.1.CDS.1 / Y55_G0042870.mRNA.1.CDS.1


Mass: 15877.490 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L0YQ58
#65: Protein 40S ribosomal protein S17-A / Ribosome / EM14S01-3B_G0022060.mRNA.1.CDS.1 / HLJ1_G0018110.mRNA.1.CDS.1 / HN1_G0018060.mRNA.1.CDS.1 / SX2_ ...EM14S01-3B_G0022060.mRNA.1.CDS.1 / HLJ1_G0018110.mRNA.1.CDS.1 / HN1_G0018060.mRNA.1.CDS.1 / SX2_G0022620.mRNA.1.CDS.1 / XXYS1_4_G0024670.mRNA.1.CDS.1 / Y55_G0022810.mRNA.1.CDS.1


Mass: 15820.413 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1BLL7
#66: Protein 40S ribosomal protein S18-B / Ribosome / BJ4_G0020690.mRNA.1.CDS.1 / BJ4_G0050070.mRNA.1.CDS.1 / EM14S01-3B_G0047090.mRNA.1.CDS.1 / HLJ1_ ...BJ4_G0020690.mRNA.1.CDS.1 / BJ4_G0050070.mRNA.1.CDS.1 / EM14S01-3B_G0047090.mRNA.1.CDS.1 / HLJ1_G0047970.mRNA.1.CDS.1 / HN1_G0018040.mRNA.1.CDS.1 / SX2_G0022600.mRNA.1.CDS.1 / SX2_G0047790.mRNA.1.CDS.1 / XXYS1_4_G0049690.mRNA.1.CDS.1 / Y55_G0022790.mRNA.1.CDS.1


Mass: 17071.641 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1AIT6
#67: Protein 40S ribosomal protein S19-A / Ribosome / BJ4_G0033890.mRNA.1.CDS.1 / EM14S01-3B_G0025820.mRNA.1.CDS.1 / HLJ1_G0036760.mRNA.1.CDS.1 / HN1_ ...BJ4_G0033890.mRNA.1.CDS.1 / EM14S01-3B_G0025820.mRNA.1.CDS.1 / HLJ1_G0036760.mRNA.1.CDS.1 / HN1_G0036510.mRNA.1.CDS.1 / SX2_G0031320.mRNA.1.CDS.1 / XXYS1_4_G0028360.mRNA.1.CDS.1 / Y55_G0036530.mRNA.1.CDS.1


Mass: 15942.125 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1BWT3
#69: Protein 40S ribosomal protein S21-A / Ribosome / S26 / Small ribosomal subunit protein eS21-A / YS25


Mass: 9758.829 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P0C0V8
#71: Protein 40S ribosomal protein S23 / / BJ4_G0028020.mRNA.1.CDS.1 / BJ4_G0041980.mRNA.1.CDS.1 / EM14S01-3B_G0020410.mRNA.1.CDS.1 / HLJ1_ ...BJ4_G0028020.mRNA.1.CDS.1 / BJ4_G0041980.mRNA.1.CDS.1 / EM14S01-3B_G0020410.mRNA.1.CDS.1 / HLJ1_G0025380.mRNA.1.CDS.1 / HLJ1_G0034480.mRNA.1.CDS.1 / HN1_G0025390.mRNA.1.CDS.1 / HN1_G0034320.mRNA.1.CDS.1 / SX2_G0039600.mRNA.1.CDS.1 / Y55_G0034430.mRNA.1.CDS.1


Mass: 16073.896 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1B1T2
#72: Protein 40S ribosomal protein S24 /


Mass: 15362.848 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1AUB6
#75: Protein 40S ribosomal protein S27-A / Ribosome / RP61 / Small ribosomal subunit protein eS27-A / YS20


Mass: 8893.391 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c / References: UniProt: P35997
#78: Protein 40S ribosomal protein S30 /


Mass: 7137.541 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: A0A6L1A1E1

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Non-polymers , 3 types, 295 molecules

#88: Chemical...
ChemComp-MG / MAGNESIUM ION


Mass: 24.305 Da / Num. of mol.: 286 / Source method: obtained synthetically / Formula: Mg / Feature type: SUBJECT OF INVESTIGATION
#89: Chemical ChemComp-ASP / ASPARTIC ACID / Aspartic acid


Type: L-peptide linking / Mass: 133.103 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: C4H7NO4
#90: Chemical
ChemComp-ZN / ZINC ION


Mass: 65.409 Da / Num. of mol.: 8 / Source method: obtained synthetically / Formula: Zn / Feature type: SUBJECT OF INVESTIGATION

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Details

Has ligand of interestY

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

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Sample preparation

Component
IDNameTypeEntity IDParent-IDSource
1Ribosomal complex with Rbg1/Tma46RIBOSOME#1-#870NATURAL
260S subunitEukaryotic large ribosomal subunit (60S)COMPLEX#1-#46, #871NATURAL
340S subunitCOMPLEX#47-#801NATURAL
4Rbg1/Tma46COMPLEX#85-#861NATURAL
5A-tRNACOMPLEX#811NATURAL
6P-tRNACOMPLEX#821NATURAL
7eIF5ACOMPLEX#841NATURAL
8mRNAMessenger RNACOMPLEX#831NATURAL
Molecular weight
IDEntity assembly-IDExperimental value
11NO
21NO
13
31NO
41NO
51NO
61NO
Source (natural)
IDEntity assembly-IDOrganismNcbi tax-ID
21Saccharomyces cerevisiae (brewer's yeast)4932
32Saccharomyces cerevisiae (brewer's yeast)4932
43Saccharomyces cerevisiae (brewer's yeast)4932
54Saccharomyces cerevisiae (brewer's yeast)4932
65Saccharomyces cerevisiae (brewer's yeast)4932
76Saccharomyces cerevisiae (brewer's yeast)4932
87Saccharomyces cerevisiae (brewer's yeast)4932
98Saccharomyces cerevisiae (brewer's yeast)4932
Buffer solutionpH: 8
Buffer component
IDConc.FormulaBuffer-ID
120 mMTris-HClTris1
2140 mMKCl1
31.5 mMMgCl21
41 %TritonX1001
51 mMDTT1
6100 ug/mlCycloheximide1
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
Specimen supportGrid material: COPPER / Grid mesh size: 300 divisions/in. / Grid type: Quantifoil R1.2/1.3
VitrificationInstrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Humidity: 100 % / Chamber temperature: 277 K

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELDBright-field microscopy / Alignment procedure: BASIC
Specimen holderCryogen: NITROGEN / Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Image recordingElectron dose: 30 e/Å2 / Film or detector model: FEI FALCON III (4k x 4k)
EM imaging opticsPhase plate: OTHER

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Processing

Software
NameVersionClassification
phenix.real_space_refine1.18.2_3874refinement
PHENIX1.18.2_3874refinement
EM softwareName: RELION / Version: 3.1.0 / Category: classification
CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
3D reconstructionResolution: 3.23 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 95380 / Symmetry type: POINT
RefinementCross valid method: NONE
Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
Displacement parametersBiso mean: 146.74 Å2
Refine LS restraints
Refine-IDTypeDev idealNumber
ELECTRON MICROSCOPYf_bond_d0.0023227639
ELECTRON MICROSCOPYf_angle_d0.661333901
ELECTRON MICROSCOPYf_chiral_restr0.038141935
ELECTRON MICROSCOPYf_plane_restr0.005722230
ELECTRON MICROSCOPYf_dihedral_angle_d18.2302102551

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