7NSJ

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

  • Classification: TRANSLATION
  • Organism(s): Sus scrofa
  • Mutation(s): No 

  • Deposited: 2021-03-07 Released: 2021-06-02 
  • Deposition Author(s): Kummer, E., Schubert, K., Ban, N.
  • Funding Organization(s): European Molecular Biology Organization (EMBO), Swiss National Science Foundation

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 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
Mitochondrial ribosomal protein L27A [auth B0]148Sus scrofaMutation(s): 0 
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Find proteins for A0A4X1U0F6 (Sus scrofa)
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UniProt GroupA0A4X1U0F6
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L28B [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
Find proteins for F1SGC7 (Sus scrofa)
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
uL30mD [auth B3]161Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A8D1MIP3 (Sus scrofa)
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
bL31mE [auth B4]126Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A4X1ULI6 (Sus scrofa)
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UniProt GroupA0A4X1ULI6
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
bL32mF [auth B5]188Sus scrofaMutation(s): 0 
UniProt
Find proteins for I3LTC4 (Sus scrofa)
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
bL33mG [auth B6]65Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A4X1TLP9 (Sus scrofa)
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L34I [auth B7]95Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A4X1UFR4 (Sus scrofa)
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
uL2mJ [auth BD]306Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1RRN2 (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 A0A287B9C4 (Sus scrofa)
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L9M [auth BI]268Sus scrofaMutation(s): 0 
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Find proteins for I3LR45 (Sus scrofa)
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L10N [auth BJ]262Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1RWJ0 (Sus scrofa)
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L11O [auth BK]192Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1RU54 (Sus scrofa)
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
uL13mP [auth BN]178Sus scrofaMutation(s): 0 
UniProt
Find proteins for K7GP19 (Sus scrofa)
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
uL14mQ [auth BO]145Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A287BMZ6 (Sus scrofa)
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
uL15mR [auth BP]296Sus scrofaMutation(s): 0 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
uL16mS [auth BQ]251Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1RI89 (Sus scrofa)
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
bL17mT [auth BR]169Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1RMQ4 (Sus scrofa)
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L18U [auth BS]180Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A286ZNK1 (Sus scrofa)
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L19V [auth BT]292Sus scrofaMutation(s): 0 
UniProt
Find proteins for I3LNJ0 (Sus scrofa)
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L20W [auth BU]149Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A286ZU56 (Sus scrofa)
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L21X [auth BV]209Sus scrofaMutation(s): 0 
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Find proteins for F1RY70 (Sus scrofa)
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
uL22mY [auth BW]210Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A4X1TXR4 (Sus scrofa)
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
uL23mZ [auth BX]150Sus scrofaMutation(s): 0 
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
uL24mAA [auth BY]216Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1RHJ1 (Sus scrofa)
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L37BA [auth Ba]423Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A287BIV6 (Sus scrofa)
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L38CA [auth Bb]380Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L39DA [auth Bc]334Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1SHP6 (Sus scrofa)
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L40EA [auth Bd]206Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A5G2R2V2 (Sus scrofa)
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L41FA [auth Be]135Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A8D1F1K9 (Sus scrofa)
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
mL42GA [auth Bf]142Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A287BQA1 (Sus scrofa)
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L43HA [auth Bg]159Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1S8U4 (Sus scrofa)
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
mL44IA [auth Bh]332Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1SR64 (Sus scrofa)
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L35JA [auth B8]188Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L45KA [auth Bi]306Sus scrofaMutation(s): 0 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L46LA [auth Bj]279Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein L48, mitochondrialMA [auth Bk]269Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A480J9Z6 (Sus scrofa)
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
Mrpl34NA [auth Bl]166Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A0R4J8D6 (Sus scrofa)
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L50OA [auth Bm]198Sus scrofaMutation(s): 0 
UniProt
Find proteins for I3L9H6 (Sus scrofa)
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L51PA [auth Bn]128Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A8D1P1C8 (Sus scrofa)
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
mL52QA [auth Bo]124Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1S9B7 (Sus scrofa)
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
mL53RA [auth Bp]112Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A341D604 (Neophocaena asiaeorientalis asiaeorientalis)
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
mL54SA [auth Bq]138Sus scrofaMutation(s): 0 
UniProt
Find proteins for I3LN63 (Sus scrofa)
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L57TA [auth Bt]102Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A287BP93 (Sus scrofa)
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
mL62 (ICT1)UA [auth Bu]205Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
mL64VA [auth Bv]222Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
39S ribosomal protein S30, mitochondrialWA [auth Bw]433Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A480QIM3 (Sus scrofa)
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S18AXA [auth Bx]196Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal proteinZA [auth B9]100Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S2BB [auth AB]289Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S24CB [auth AC]167Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S5, mitochondrial isoform X2DB [auth AE]430Sus scrofaMutation(s): 0 
UniProt
Find proteins for F1SU66 (Sus scrofa)
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
bS6mEB [auth AF]276Sus scrofaMutation(s): 0 
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S7FB [auth AG]242Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A286ZJ25 (Sus scrofa)
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
uS9mGB [auth AI]397Sus scrofaMutation(s): 0 
UniProt
Find proteins for I3LU08 (Sus scrofa)
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S10HB [auth AJ]200Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
uS11mIB [auth AK]196Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S12JB [auth AL]139Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A0M3KL52 (Sus scrofa)
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S14KB [auth AN]128Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
uS15mLB [auth AO]239Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
28S ribosomal protein S16, mitochondrialMB [auth AP]135Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
uS17mNB [auth AQ]130Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A8D1UDM1 (Sus scrofa)
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S18COB [auth AR]143Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
bS21mPB [auth AU]87Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
unknownQB [auth AZ]18Sus scrofaMutation(s): 0 
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Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S22RB [auth Aa]382Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
mS23SB [auth Ab]190Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 72
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S25TB [auth Ac]173Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A0M3KL55 (Sus scrofa)
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Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S26UB [auth Ad]205Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 74
MoleculeChains Sequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S27VB [auth Ae]455Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A5G2R5D6 (Sus scrofa)
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Entity ID: 75
MoleculeChains Sequence LengthOrganismDetailsImage
Mitoribosomal protein ms28, mrps28WB [auth Af]188Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 76
MoleculeChains Sequence LengthOrganismDetailsImage
Death associated protein 3XB [auth Ag]410Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A8D1XNL0 (Sus scrofa)
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