7NSI

55S mammalian mitochondrial ribosome with mtRRF (pre) and tRNA(P/E)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.60 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

Structural basis of translation termination, rescue, and recycling in mammalian mitochondria.

Kummer, E.Schubert, K.N.Schoenhut, T.Scaiola, A.Ban, N.

(2021) Mol Cell 81: 2566-2582.e6

  • DOI: https://doi.org/10.1016/j.molcel.2021.03.042
  • Primary Citation of Related Structures:  
    7NQH, 7NQL, 7NSH, 7NSI, 7NSJ

  • PubMed Abstract: 

    The mitochondrial translation system originates from a bacterial ancestor but has substantially diverged in the course of evolution. Here, we use single-particle cryo-electron microscopy (cryo-EM) as a screening tool to identify mitochondrial translation termination mechanisms and to describe them in molecular detail. We show how mitochondrial release factor 1a releases the nascent chain from the ribosome when it encounters the canonical stop codons UAA and UAG. Furthermore, we define how the peptidyl-tRNA hydrolase ICT1 acts as a rescue factor on mitoribosomes that have stalled on truncated messages to recover them for protein synthesis. Finally, we present structural models detailing the process of mitochondrial ribosome recycling to explain how a dedicated elongation factor, mitochondrial EFG2 (mtEFG2), has specialized for cooperation with the mitochondrial ribosome recycling factor to dissociate the mitoribosomal subunits at the end of the translation process.


  • Organizational Affiliation

    Swiss Federal Institute of Technology, Institute of Molecular Biology and Biophysics, Otto-Stern-Weg 5, 8093 Zurich, Switzerland. Electronic address: eva.kummer@cpr.ku.dk.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L27, mitochondrialA [auth B0]148Sus scrofaMutation(s): 0 
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UniProt GroupA0A4X1U0F6
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L28, mitochondrialB [auth B1]256Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A286ZTW8 (Sus scrofa)
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L47C [auth B2]252Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L30, mitochondrialD [auth B3]161Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L55E [auth B4]126Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A4X1ULI6 (Sus scrofa)
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
bL32mF [auth B5]188Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L33, mitochondrialG [auth B6]65Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A4X1TLP9 (Sus scrofa)
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L34, mitochondrialI [auth B7]95Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal_L2_C domain-containing proteinJ [auth BD]306Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A287A143 (Sus scrofa)
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
ICT1K [auth BE]399Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A140UHW4 (Sus scrofa)
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L4L [auth BF]294Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A287B2W3 (Sus scrofa)
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosome-recycling factor, mitochondrialM [auth BG]257Homo sapiensMutation(s): 0 
Gene Names: MRRF
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GTEx:  ENSG00000148187 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L9, mitochondrialN [auth BI]268Sus scrofaMutation(s): 0 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L10, mitochondrial isoform aO [auth BJ]262Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L11, mitochondrial isoform aP [auth BK]192Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L13, mitochondrialQ [auth BN]178Sus scrofaMutation(s): 0 
UniProt
Find proteins for K7GP19 (Sus scrofa)
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
uL14mR [auth BO]145Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A4X1V5Y7 (Sus scrofa)
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L15, mitochondrialS [auth BP]296Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L16, mitochondrialT [auth BQ]251Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L17, mitochondrialU [auth BR]169Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L18, mitochondrial isoform 1V [auth BS]180Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A0R4J8D5 (Sus scrofa)
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L19, mitochondrialW [auth BT]292Sus scrofaMutation(s): 0 
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L20, mitochondrial isoform 1X [auth BU]149Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A286ZU56 (Sus scrofa)
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L21, mitochondrial isoform dY [auth BV]209Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L22, mitochondrialZ [auth BW]210Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L23, mitochondrialAA [auth BX]150Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L24, mitochondrial isoform X1BA [auth BY]216Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L37, mitochondrialCA [auth Ba]423Sus scrofaMutation(s): 0 
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L38, mitochondrialDA [auth Bb]380Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
TGS domain-containing proteinEA [auth Bc]334Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L40FA [auth Bd]206Sus scrofaMutation(s): 0 
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L41GA [auth Be]135Sus scrofaMutation(s): 0 
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
mL42HA [auth Bf]142Sus scrofaMutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L43, mitochondrial isoform X2IA [auth Bg]159Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L35, mitochondrialJA [auth B8]188Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L44, mitochondrialKA [auth Bh]332Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L45LA [auth Bi]306Sus scrofaMutation(s): 0 
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L46, mitochondrialMA [auth Bj]279Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L48, mitochondrialNA [auth Bk]269Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L49, mitochondrialOA [auth Bl]166Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L50, mitochondrialPA [auth Bm]198Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L51, mitochondrialQA [auth Bn]128Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L52, mitochondrialRA [auth Bo]124Sus scrofaMutation(s): 0 
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
mL53SA [auth Bp]112Sus scrofaMutation(s): 0 
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L54, mitochondrialTA [auth Bq]138Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L57UA [auth Bt]102Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A287BP93 (Sus scrofa)
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L58VA [auth Bu]205Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A286ZJR2 (Sus scrofa)
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L59, mitochondrialWA [auth Bv]222Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein S30, mitochondrialXA [auth Bw]433Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A480QIM3 (Sus scrofa)
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S18AYA [auth Bx]196Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal proteinAB [auth B9]100Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A4X1THS9 (Sus scrofa)
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S2, mitochondrialEB [auth AB]289Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S24, mitochondrialFB [auth AC]167Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A287ANU4 (Sus scrofa)
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S5, mitochondrial isoform X2GB [auth AE]430Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1SU66 (Sus scrofa)
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S6HB [auth AF]276Sus scrofaMutation(s): 0 
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S7, mitochondrialIB [auth AG]242Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A286ZJ25 (Sus scrofa)
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S9, mitochondrialJB [auth AI]397Sus scrofaMutation(s): 0 
UniProt
Find proteins for I3LU08 (Sus scrofa)
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S10, mitochondrialKB [auth AJ]200Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S11LB [auth AK]196Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
Mitoribosomal protein us12m, mrps12MB [auth AL]139Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A0M3KL52 (Sus scrofa)
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S14, mitochondrialNB [auth AN]128Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A0M3KL53 (Sus scrofa)
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S15, mitochondrialOB [auth AO]239Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A4X1VVY1 (Sus scrofa)
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S16, mitochondrialPB [auth AP]135Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A480JTD7 (Sus scrofa)
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Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
uS17mQB [auth AQ]130Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A8D1UDM1 (Sus scrofa)
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Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S18c, mitochondrial isoform 1RB [auth AR]143Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A0M3KL54 (Sus scrofa)
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Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S21, mitochondrialSB [auth AU]87Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A286ZNB3 (Sus scrofa)
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Entity ID: 72
MoleculeChains Sequence LengthOrganismDetailsImage
unknownTB [auth AZ]18Sus scrofaMutation(s): 0 
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Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S22UB [auth Aa]382Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A287AQT5 (Sus scrofa)
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Entity ID: 74
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S23VB [auth Ab]190Sus scrofaMutation(s): 0 
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Entity ID: 75
MoleculeChains Sequence LengthOrganismDetailsImage
Interferon alpha-inducible protein 6WB [auth Ac]173Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A0M3KL55 (Sus scrofa)
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Entity ID: 76
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S26, mitochondrialXB [auth Ad]205Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1S8A5 (Sus scrofa)
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Entity ID: 77
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S27YB [auth Ae]455Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A5G2R5D6 (Sus scrofa)
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Entity ID: 78
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S28, mitochondrialZB [auth Af]188Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A0M3KL56 (Sus scrofa)
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