7NQH

55S mammalian mitochondrial ribosome with mtRF1a and P-site tRNAMet


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 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 ...

    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: ban@mol.biol.ethz.ch.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L12198Sus scrofaMutation(s): 0 
Gene Names: MRPL12
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L27G [auth B0]148Sus scrofaMutation(s): 0 
Gene Names: MRPL27
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L28H [auth B1]256Sus scrofaMutation(s): 0 
Gene Names: MRPL28
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L47I [auth B2]252Sus scrofaMutation(s): 0 
Gene Names: MRPL47
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
uL2mK [auth BD]306Sus scrofaMutation(s): 0 
Gene Names: MRPL2
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
ICT1L [auth BE]399Sus scrofaMutation(s): 0 
Gene Names: MRPL3
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Find proteins for A0A140UHW4 (Sus scrofa)
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Entity ID: 8
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Mitochondrial ribosomal protein L4M [auth BF]294Sus scrofaMutation(s): 0 
Gene Names: MRPL4
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L9N [auth BI]268Sus scrofaMutation(s): 0 
Gene Names: MRPL9
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Entity ID: 10
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Mitochondrial ribosomal protein L10O [auth BJ]262Sus scrofaMutation(s): 0 
Gene Names: MRPL10
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Entity ID: 11
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Mitochondrial ribosomal protein L11P [auth BK]192Sus scrofaMutation(s): 0 
Gene Names: MRPL11
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Entity ID: 12
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Peptide chain release factor 1-like, mitochondrialQ [auth BL]362Homo sapiensMutation(s): 0 
Gene Names: MTRF1LMTRF1A
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Entity ID: 13
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uL13mR [auth BN]178Sus scrofaMutation(s): 0 
Gene Names: MRPL13
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
uL14mS [auth BO]145Sus scrofaMutation(s): 0 
Gene Names: MRPL14
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Entity ID: 15
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uL15mT [auth BP]296Sus scrofaMutation(s): 0 
Gene Names: MRPL15
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Entity ID: 16
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uL16mU [auth BQ]251Sus scrofaMutation(s): 0 
Gene Names: MRPL16
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Entity ID: 17
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bL17mV [auth BR]169Sus scrofaMutation(s): 0 
Gene Names: MRPL17
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Entity ID: 18
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Mitochondrial ribosomal protein L18W [auth BS]180Sus scrofaMutation(s): 0 
Gene Names: MRPL18
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Entity ID: 19
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Mitochondrial ribosomal protein L19X [auth BT]292Sus scrofaMutation(s): 0 
Gene Names: MRPL19
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Entity ID: 20
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Mitochondrial ribosomal protein L20Y [auth BU]149Sus scrofaMutation(s): 0 
Gene Names: MRPL20
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Entity ID: 21
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Mitochondrial ribosomal protein L21Z [auth BV]209Sus scrofaMutation(s): 0 
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Entity ID: 22
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uL22mAA [auth BW]210Sus scrofaMutation(s): 0 
Gene Names: MRPL22
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Entity ID: 23
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uL23mBA [auth BX]150Sus scrofaMutation(s): 0 
Gene Names: MRPL23
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Entity ID: 24
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uL24mCA [auth BY]216Sus scrofaMutation(s): 0 
Gene Names: MRPL24
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Entity ID: 25
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Mitochondrial ribosomal protein L37DA [auth Ba]423Sus scrofaMutation(s): 0 
Gene Names: MRPL37
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Entity ID: 26
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Mitochondrial ribosomal protein L38EA [auth Bb]380Sus scrofaMutation(s): 0 
Gene Names: MRPL38
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Entity ID: 27
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uL30mFA [auth B3]161Sus scrofaMutation(s): 0 
Gene Names: MRPL30
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Entity ID: 28
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Mitochondrial ribosomal protein L39GA [auth Bc]334Sus scrofaMutation(s): 0 
Gene Names: MRPL39
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Entity ID: 29
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mL40HA [auth Bd]206Sus scrofaMutation(s): 0 
Gene Names: MRPL40
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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L41IA [auth Be]135Sus scrofaMutation(s): 0 
Gene Names: MRPL41
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Entity ID: 31
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mL42JA [auth Bf]142Sus scrofaMutation(s): 0 
Gene Names: MRPL42
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Entity ID: 32
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Mitochondrial ribosomal protein L43KA [auth Bg]159Sus scrofaMutation(s): 0 
Gene Names: MRPL43
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Entity ID: 33
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mL44LA [auth Bh]332Sus scrofaMutation(s): 0 
Gene Names: MRPL44
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Entity ID: 34
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Mitochondrial ribosomal protein L45MA [auth Bi]306Sus scrofaMutation(s): 0 
Gene Names: MRPL45
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Entity ID: 35
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Mitochondrial ribosomal protein L46NA [auth Bj]279Sus scrofaMutation(s): 0 
Gene Names: MRPL46
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Entity ID: 36
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39S ribosomal protein L48, mitochondrialOA [auth Bk]269Sus scrofaMutation(s): 0 
Gene Names: MRPL48
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Entity ID: 37
MoleculeChainsSequence LengthOrganismDetailsImage
Mrpl34PA [auth Bl]166Sus scrofaMutation(s): 0 
Gene Names: MRPL49
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Entity ID: 38
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Mitochondrial ribosomal protein L50QA [auth Bm]198Sus scrofaMutation(s): 0 
Gene Names: MRPL50
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Entity ID: 39
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Mitochondrial ribosomal protein L51RA [auth Bn]128Sus scrofaMutation(s): 0 
Gene Names: MRPL51
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Entity ID: 40
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mL52SA [auth Bo]124Sus scrofaMutation(s): 0 
Gene Names: MRPL52
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Entity ID: 41
MoleculeChainsSequence LengthOrganismDetailsImage
mL53TA [auth Bp]112Sus scrofaMutation(s): 0 
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Entity ID: 42
MoleculeChainsSequence LengthOrganismDetailsImage
mL54UA [auth Bq]138Sus scrofaMutation(s): 0 
Gene Names: MRPL54
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Entity ID: 43
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L57VA [auth Bt]102Sus scrofaMutation(s): 0 
Gene Names: MRPL57
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Entity ID: 44
MoleculeChainsSequence LengthOrganismDetailsImage
mL62 (ICT1)WA [auth Bu]205Sus scrofaMutation(s): 0 
Gene Names: MRPL58
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Entity ID: 45
MoleculeChainsSequence LengthOrganismDetailsImage
mL64XA [auth Bv]222Sus scrofaMutation(s): 0 
Gene Names: GADD45GIP1
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Entity ID: 46
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39S ribosomal protein S30, mitochondrialYA [auth Bw]433Sus scrofaMutation(s): 0 
Gene Names: MRPS30
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Entity ID: 47
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Mitochondrial ribosomal protein S18AZA [auth Bx]196Sus scrofaMutation(s): 0 
Gene Names: MRPS18A
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Entity ID: 49
MoleculeChainsSequence LengthOrganismDetailsImage
bL31mBB [auth B4]126Sus scrofaMutation(s): 0 
Gene Names: MRPL55
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Entity ID: 50
MoleculeChainsSequence LengthOrganismDetailsImage
bL32mCB [auth B5]188Sus scrofaMutation(s): 0 
Gene Names: MRPL32
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Entity ID: 51
MoleculeChainsSequence LengthOrganismDetailsImage
bL33mDB [auth B6]65Sus scrofaMutation(s): 0 
Gene Names: MRPL33
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Entity ID: 52
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein L34EB [auth B7]95Sus scrofaMutation(s): 0 
Gene Names: MRPL34
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Entity ID: 53
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Mitochondrial ribosomal protein S2FB [auth AB]289Sus scrofaMutation(s): 0 
Gene Names: MRPS2
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Entity ID: 54
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Mitochondrial ribosomal protein S24GB [auth AC]167Sus scrofaMutation(s): 0 
Gene Names: MRPS24
UniProt
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Entity ID: 55
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S5HB [auth AE]430Sus scrofaMutation(s): 0 
Gene Names: MRPS5
UniProt
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Entity ID: 56
MoleculeChainsSequence LengthOrganismDetailsImage
bS6mIB [auth AF]276Sus scrofaMutation(s): 0 
Gene Names: MRPS6
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Entity ID: 57
MoleculeChainsSequence LengthOrganismDetailsImage
28S ribosomal protein S7, mitochondrialJB [auth AG]240Sus scrofaMutation(s): 0 
Gene Names: MRPS7
UniProt
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Entity ID: 58
MoleculeChainsSequence LengthOrganismDetailsImage
uS9mKB [auth AI]397Sus scrofaMutation(s): 0 
Gene Names: MRPS9
UniProt
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Entity ID: 59
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S10LB [auth AJ]200Sus scrofaMutation(s): 0 
Gene Names: MRPS10
UniProt
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Entity ID: 60
MoleculeChainsSequence LengthOrganismDetailsImage
uS11mMB [auth AK]196Sus scrofaMutation(s): 0 
Gene Names: MRPS11
UniProt
Find proteins for A0A286ZJJ6 (Sus scrofa)
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Entity ID: 61
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S12NB [auth AL]139Sus scrofaMutation(s): 0 
UniProt
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Entity ID: 62
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S14OB [auth AN]128Sus scrofaMutation(s): 0 
Gene Names: MRPS14
UniProt
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Entity ID: 63
MoleculeChainsSequence LengthOrganismDetailsImage
uS15mPB [auth AO]239Sus scrofaMutation(s): 0 
Gene Names: MRPS15
UniProt
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Entity ID: 64
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28S ribosomal protein S16, mitochondrialQB [auth AP]135Sus scrofaMutation(s): 0 
Gene Names: MRPS16
UniProt
Find proteins for A0A480JTD7 (Sus scrofa)
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Entity ID: 65
MoleculeChainsSequence LengthOrganismDetailsImage
uS17mRB [auth AQ]130Sus scrofaMutation(s): 0 
Gene Names: MRPS17
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Entity ID: 66
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S18CSB [auth AR]143Sus scrofaMutation(s): 0 
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Entity ID: 67
MoleculeChainsSequence LengthOrganismDetailsImage
bS21mTB [auth AU]87Sus scrofaMutation(s): 0 
Gene Names: MRPS21
UniProt
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Entity ID: 70
MoleculeChainsSequence LengthOrganismDetailsImage
unknownWB [auth AZ]18Sus scrofaMutation(s): 0 
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Entity ID: 71
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S22XB [auth Aa]382Sus scrofaMutation(s): 0 
Gene Names: MRPS22
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Entity ID: 72
MoleculeChainsSequence LengthOrganismDetailsImage
mS23YB [auth Ab]190Sus scrofaMutation(s): 0 
Gene Names: MRPS23
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Entity ID: 73
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S25ZB [auth Ac]173Sus scrofaMutation(s): 0 
Gene Names: MRPS25
UniProt
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Entity ID: 74
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S26AC [auth Ad]205Sus scrofaMutation(s): 0 
Gene Names: GNRH2
UniProt
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Entity ID: 75
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Mitochondrial ribosomal protein L35BC [auth B8]188Sus scrofaMutation(s): 0 
Gene Names: MRPL35
UniProt
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Entity ID: 76
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Mitochondrial ribosomal protein S27CC [auth Ae]455Sus scrofaMutation(s): 0 
Gene Names: MRPS27
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Entity ID: 77
MoleculeChainsSequence LengthOrganismDetailsImage
Mitoribosomal protein ms28, mrps28DC [auth Af]188Sus scrofaMutation(s): 0 
Gene Names: MRPS28
UniProt
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Entity ID: 78
MoleculeChainsSequence LengthOrganismDetailsImage
Death associated protein 3EC [auth Ag]410Sus scrofaMutation(s): 0 
Gene Names: DAP3
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Entity ID: 79
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S31FC [auth Ah]387Sus scrofaMutation(s): 0 
Gene Names: MRPS31
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Entity ID: 80
MoleculeChainsSequence LengthOrganismDetailsImage
mS33GC [auth Ai]106Sus scrofaMutation(s): 0 
Gene Names: MRPS33
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Entity ID: 81
MoleculeChainsSequence LengthOrganismDetailsImage
mS34HC [auth Aj]218Sus scrofaMutation(s): 0 
Gene Names: MRPS34
UniProt
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Entity ID: 82
MoleculeChainsSequence LengthOrganismDetailsImage
Mitochondrial ribosomal protein S35IC [auth Ak]325Sus scrofaMutation(s): 0 
Gene Names: MRPS35
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Entity ID: 83
MoleculeChainsSequence LengthOrganismDetailsImage
mS37JC [auth Am]118Sus scrofaMutation(s): 0 
Gene Names: CHCHD1
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Entity ID: 84
MoleculeChainsSequence LengthOrganismDetailsImage
Aurora kinase A interacting protein 1KC [auth An]199Sus scrofaMutation(s): 0 
Gene Names: AURKAIP1
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Entity ID: 85
MoleculeChainsSequence LengthOrganismDetailsImage
Pentatricopeptide repeat domain 3LC [auth Ao]699Sus scrofaMutation(s): 0 
Gene Names: PTCD3
UniProt
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Entity ID: 86
MoleculeChainsSequence LengthOrganismDetailsImage
28S ribosomal protein S18b, mitochondrialMC [auth Ap]258Sus scrofaMutation(s): 0 
Gene Names: MRPS18B
UniProt
Find proteins for Q767K8 (Sus scrofa)
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Entity ID: 87
MoleculeChainsSequence LengthOrganismDetailsImage
Ribosomal proteinNC [auth B9]100Sus scrofaMutation(s): 0 
Gene Names: MRPL36
UniProt
Find proteins for A0A287A731 (Sus scrofa)
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Entity ID: 5
MoleculeChainsLengthOrganismImage
tRNA(Phe) in LSUJ [auth BB]73Sus scrofa
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Entity ID: 48
MoleculeChainsLengthOrganismImage
12S rRNAAB [auth AA]962Sus scrofa
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Entity ID: 68
MoleculeChainsLengthOrganismImage
tRNAMetUB [auth AV]71Homo sapiens
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Entity ID: 69
MoleculeChainsLengthOrganismImage
mRNAVB [auth AX]9Homo sapiens
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