7ZW0

FAP-80S Complex - Rotated state


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Sensing of individual stalled 80S ribosomes by Fap1 for nonfunctional rRNA turnover.

Li, S.Ikeuchi, K.Kato, M.Buschauer, R.Sugiyama, T.Adachi, S.Kusano, H.Natsume, T.Berninghausen, O.Matsuo, Y.Becker, T.Beckmann, R.Inada, T.

(2022) Mol Cell 82: 3424-3437.e8

  • DOI: https://doi.org/10.1016/j.molcel.2022.08.018
  • Primary Citation of Related Structures:  
    7ZW0

  • PubMed Abstract: 

    Cells can respond to stalled ribosomes by sensing ribosome collisions and employing quality control pathways. How ribosome stalling is resolved without collisions, however, has remained elusive. Here, focusing on noncolliding stalling exhibited by decoding-defective ribosomes, we identified Fap1 as a stalling sensor triggering 18S nonfunctional rRNA decay via polyubiquitination of uS3. Ribosome profiling revealed an enrichment of Fap1 at the translation initiation site but also an association with elongating individual ribosomes. Cryo-EM structures of Fap1-bound ribosomes elucidated Fap1 probing the mRNA simultaneously at both the entry and exit channels suggesting an mRNA stasis sensing activity, and Fap1 sterically hinders the formation of canonical collided di-ribosomes. Our findings indicate that individual stalled ribosomes are the potential signal for ribosome dysfunction, leading to accelerated turnover of the ribosome itself.


  • Organizational Affiliation

    From the Graduate School of Pharmaceutical Sciences, Tohoku University, Sendai 980-8578, Japan.


Macromolecules

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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L1-AB [auth LB]217Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S0-AD [auth sP]252Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S1-AE [auth sQ]255Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
RPS15 isoform 1F [auth sE]142Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S2G [auth sR]254Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3H [auth sA]240Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S4-BI [auth sS]261Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S5J [auth sB]225Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S6-BK [auth sT]236Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S7-AL [auth sU]190Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S8-AM [auth sV]200Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S9-AN [auth sW]197Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S10-AO [auth sC]105Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S11-AP [auth sX]156Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S12Q [auth sD]143Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S13R [auth sY]151Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S14-AS [auth sZ]137Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S16-AT [auth sF]143Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P0CX51 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S17-AU [auth sG]136Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S18-AV [auth sH]146Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S19-AW [auth sI]144Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S20X [auth sJ]121Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S21-AY [auth sa]87Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S22-AZ [auth sb]130Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P0C0W1 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S23-AAA [auth sc]145Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S24-ABA [auth sd]135Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S25-ACA [auth sK]108Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S26-ADA [auth se]119Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S27-AEA [auth sf]82Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
RPS29A isoform 1FA [auth sM]56Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S30-AGA [auth sg]63Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S31HA [auth sN]76Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein subunit beta-like proteinIA [auth sO]319Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S28-AJA [auth sL]67Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
Uncharacterized protein YIL161WKA [auth sj]235Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
FK506-binding protein 1LA [auth sk]114Saccharomyces cerevisiae W303Mutation(s): 0 
EC: 5.2.1.8
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L2-ARA [auth LE]254Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L3SA [auth LF]387Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L4-ATA [auth LG]362Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L5UA [auth LH]297Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L6-BVA [auth LI]176Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L7-AWA [auth LJ]244Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L8-AXA [auth LK]256Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L9-AYA [auth LL]191Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P05738 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L10ZA [auth LM]221Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L11-AAB [auth LN]174Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L13-ABB [auth LO]199Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for Q12690 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L14-ACB [auth LP]138Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P36105 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L15-ADB [auth LQ]204Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L16-AEB [auth LR]199Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L17-AFB [auth LS]184Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L18-AGB [auth LT]186Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L19-AHB [auth LU]189Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L20-AIB [auth LV]172Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L21-AJB [auth LW]160Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L22-AKB [auth LX]121Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L23-ALB [auth LY]137Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L24-AMB [auth LZ]155Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L25NB [auth La]142Saccharomyces cerevisiae W303Mutation(s): 0 
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L26-AOB [auth Lb]127Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L27-APB [auth Lc]136Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L28QB [auth Ld]149Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P02406 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L29RB [auth Le]59Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L30SB [auth Lf]105Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P14120 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L31-ATB [auth Lg]113Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 72
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L32UB [auth Lh]130Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P38061 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L33-AVB [auth Li]107Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 74
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L34-AWB [auth Lj]121Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P87262 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 75
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L35-AXB [auth Lk]120Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 76
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L36-AYB [auth Ll]100Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 77
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L37-AZB [auth Lm]88Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P49166 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 78
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L38AC [auth Ln]78Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 79
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L39BC [auth Lo]51Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
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Entity ID: 80
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L40-ACC [auth Lp]52Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P0CH08 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 81
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L41-ADC [auth Lq],
GC [auth Lt]
25Saccharomyces cerevisiae W303Mutation(s): 0 
UniProt
Find proteins for P0CX86 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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