7PUA

Middle assembly intermediate of the Trypanosoma brucei mitoribosomal small subunit


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Mitoribosomal small subunit maturation involves formation of initiation-like complexes.

Lenarcic, T.Niemann, M.Ramrath, D.J.F.Calderaro, S.Flugel, T.Saurer, M.Leibundgut, M.Boehringer, D.Prange, C.Horn, E.K.Schneider, A.Ban, N.

(2022) Proc Natl Acad Sci U S A 119

  • DOI: https://doi.org/10.1073/pnas.2114710118
  • Primary Citation of Related Structures:  
    7PUA, 7PUB

  • PubMed Abstract: 
  • Mitochondrial ribosomes (mitoribosomes) play a central role in synthesizing mitochondrial inner membrane proteins responsible for oxidative phosphorylation. Although mitoribosomes from different organisms exhibit considerable structural variations, recent insights into mitoribosome assembly suggest that mitoribosome maturation follows common principles and involves a number of conserved assembly factors ...

    Mitochondrial ribosomes (mitoribosomes) play a central role in synthesizing mitochondrial inner membrane proteins responsible for oxidative phosphorylation. Although mitoribosomes from different organisms exhibit considerable structural variations, recent insights into mitoribosome assembly suggest that mitoribosome maturation follows common principles and involves a number of conserved assembly factors. To investigate the steps involved in the assembly of the mitoribosomal small subunit (mt-SSU) we determined the cryoelectron microscopy structures of middle and late assembly intermediates of the Trypanosoma brucei mitochondrial small subunit (mt-SSU) at 3.6- and 3.7-Å resolution, respectively. We identified five additional assembly factors that together with the mitochondrial initiation factor 2 (mt-IF-2) specifically interact with functionally important regions of the rRNA, including the decoding center, thereby preventing premature mRNA or large subunit binding. Structural comparison of assembly intermediates with mature mt-SSU combined with RNAi experiments suggests a noncanonical role of mt-IF-2 and a stepwise assembly process, where modular exchange of ribosomal proteins and assembly factors together with mt-IF-2 ensure proper 9S rRNA folding and protein maturation during the final steps of assembly.


    Organizational Affiliation

    Department of Biology, Institute of Molecular Biology and Biophysics, ETH Zurich, CH-8093 Zurich, Switzerland; andre.schneider@dcb.unibe.ch ban@mol.biol.ethz.ch.



Macromolecules

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
uS3mC [auth CC]74Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 4
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Ribosomal_S5_C domain-containing proteinD [auth CE]435Trypanosoma brucei bruceiMutation(s): 0 
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Find proteins for D0A335 (Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972))
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bS6mE [auth CF]160Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 6
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30S ribosomal protein S8, putativeF [auth CH]282Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 7
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uS9mG [auth CI]443Trypanosoma brucei bruceiMutation(s): 0 
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LysM domain-containing proteinH [auth CJ]817Trypanosoma brucei bruceiMutation(s): 0 
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uS11mI [auth CK]326Trypanosoma brucei bruceiMutation(s): 0 
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uS12mJ [auth CL]87Trypanosoma brucei bruceiMutation(s): 0 
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uS14mK [auth CN]166Trypanosoma brucei bruceiMutation(s): 0 
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uS15mL [auth CO]429Trypanosoma brucei bruceiMutation(s): 0 
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bS16mM [auth CP]188Trypanosoma brucei bruceiMutation(s): 0 
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30S Ribosomal protein S17, putativeN [auth CQ]307Trypanosoma brucei bruceiMutation(s): 0 
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bS18mO [auth CR]320Trypanosoma brucei bruceiMutation(s): 0 
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uS19mP [auth CS]244Trypanosoma brucei bruceiMutation(s): 0 
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bS21mQ [auth CU]193Trypanosoma brucei bruceiMutation(s): 0 
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mS22R [auth Ca]602Trypanosoma brucei bruceiMutation(s): 0 
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mS23S [auth Cb]325Trypanosoma brucei bruceiMutation(s): 0 
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mS26T [auth Cd]440Trypanosoma brucei bruceiMutation(s): 0 
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mS29U [auth Cg]498Trypanosoma brucei bruceiMutation(s): 0 
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mS33V [auth Ci]181Trypanosoma brucei bruceiMutation(s): 0 
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mS34W [auth Cj]257Trypanosoma brucei bruceiMutation(s): 0 
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mS35X [auth Ck]874Trypanosoma brucei bruceiMutation(s): 0 
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mS37Y [auth Cm]215Trypanosoma brucei bruceiMutation(s): 0 
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mS38Z [auth Cn]250Trypanosoma brucei bruceiMutation(s): 0 
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Protein FYV4, mitochondrialAA [auth Cp]187Trypanosoma brucei bruceiMutation(s): 0 
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mS49BA [auth DB]1,181Trypanosoma brucei bruceiMutation(s): 0 
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mS50CA [auth DC]1,165Trypanosoma brucei bruceiMutation(s): 0 
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mS51DA [auth DD]812Trypanosoma brucei bruceiMutation(s): 0 
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mS52EA [auth DE]747Trypanosoma brucei bruceiMutation(s): 0 
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mS53FA [auth DF]666Trypanosoma brucei bruceiMutation(s): 0 
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mS54GA [auth DG]631Trypanosoma brucei bruceiMutation(s): 0 
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mS55HA [auth DH]581Trypanosoma brucei bruceiMutation(s): 0 
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mS56IA [auth DI]407Trypanosoma brucei bruceiMutation(s): 0 
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mS57JA [auth DJ]396Trypanosoma brucei bruceiMutation(s): 0 
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mS58KA [auth DK]324Trypanosoma brucei bruceiMutation(s): 0 
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mS59LA [auth DL]307Trypanosoma brucei bruceiMutation(s): 0 
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mS62MA [auth DO]282Trypanosoma brucei bruceiMutation(s): 0 
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mS63NA [auth DP]274Trypanosoma brucei bruceiMutation(s): 0 
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mS65OA [auth DR]270Trypanosoma brucei bruceiMutation(s): 0 
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Rhodanese domain-containing proteinPA [auth DT]247Trypanosoma brucei bruceiMutation(s): 0 
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Ubiquitin-like domain-containing proteinQA [auth DU]228Trypanosoma brucei bruceiMutation(s): 0 
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mS69RA [auth DV]183Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 45
MoleculeChainsSequence LengthOrganismDetailsImage
mS70SA [auth DW]179Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 46
MoleculeChainsSequence LengthOrganismDetailsImage
mS71TA [auth DX]169Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 47
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mS72UA [auth DY]163Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 48
MoleculeChainsSequence LengthOrganismDetailsImage
mS73VA [auth DZ]94Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 49
MoleculeChainsSequence LengthOrganismDetailsImage
mS74WA [auth Da]64Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 50
MoleculeChainsSequence LengthOrganismDetailsImage
PPR_long domain-containing proteinXA [auth F2]1,024Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 51
MoleculeChainsSequence LengthOrganismDetailsImage
mt-SAF3YA [auth F3]966Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 52
MoleculeChainsSequence LengthOrganismDetailsImage
mt-SAF5ZA [auth F5]754Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 53
MoleculeChainsSequence LengthOrganismDetailsImage
DUF4460 domain-containing proteinAB [auth F6]676Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 54
MoleculeChainsSequence LengthOrganismDetailsImage
mt-SAF7BB [auth F7]679Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 55
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mt-SAF9CB [auth F9]607Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 56
MoleculeChainsSequence LengthOrganismDetailsImage
mt-SAF21DB [auth FM],
EB [auth FN]
370Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 57
MoleculeChainsSequence LengthOrganismDetailsImage
mt-SAF22FB [auth FO]334Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 58
MoleculeChainsSequence LengthOrganismDetailsImage
mt-SAF23GB [auth FP]349Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 59
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LMWPc domain-containing proteinHB [auth FW]263Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 60
MoleculeChainsSequence LengthOrganismDetailsImage
mt-SAF27IB [auth FX]239Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 61
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mt-SAF29JB [auth FZ]178Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 62
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mt-SAF31KB [auth Fb]151Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 63
MoleculeChainsSequence LengthOrganismDetailsImage
Acyl carrier proteinLB [auth Fc]148Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 64
MoleculeChainsSequence LengthOrganismDetailsImage
DUF4379 domain-containing proteinMB [auth Fd]143Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 65
MoleculeChainsSequence LengthOrganismDetailsImage
DNA photolyase, putativeNB [auth Ff]848Trypanosoma brucei bruceiMutation(s): 0 
EC: 4.1.99.3
UniProt
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Entity ID: 66
MoleculeChainsSequence LengthOrganismDetailsImage
Acyl transferase-like protein, putativeOB [auth Fg]550Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 67
MoleculeChainsSequence LengthOrganismDetailsImage
mt-SAF37PB [auth Fh]318Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q38A63 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 68
MoleculeChainsSequence LengthOrganismDetailsImage
mt-SAF38QB [auth Fi]629Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 69
MoleculeChainsSequence LengthOrganismDetailsImage
Translation initiation factor IF-2, putativeRB [auth IA]787Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 70
MoleculeChainsSequence LengthOrganismDetailsImage
mt-SAF39SB [auth IB]803Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for D0A0V4 (Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972))
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Entity ID: 71
MoleculeChainsSequence LengthOrganismDetailsImage
Unk8TB [auth U8]30Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 72
MoleculeChainsSequence LengthOrganismDetailsImage
UnkCUB [auth UC]9Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 73
MoleculeChainsSequence LengthOrganismDetailsImage
UnkDVB [auth UD]13Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 74
MoleculeChainsSequence LengthOrganismDetailsImage
UnkFWB [auth UF]36Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 75
MoleculeChainsSequence LengthOrganismDetailsImage
UnkGXB [auth UG]15Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 76
MoleculeChainsSequence LengthOrganismDetailsImage
UnkIYB [auth UI]6Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 77
MoleculeChainsSequence LengthOrganismDetailsImage
UnkKZB [auth UK]24Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 78
MoleculeChainsSequence LengthOrganismDetailsImage
UnkAC [auth UM],
BC [auth UN],
DC [auth UQ]
8Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 79
MoleculeChainsSequence LengthOrganismDetailsImage
UnkPCC [auth UP]32Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 80
MoleculeChainsSequence LengthOrganismDetailsImage
UnkaEC [auth Ua]10Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 81
MoleculeChainsSequence LengthOrganismDetailsImage
UnkgFC [auth Ug]271Trypanosoma brucei bruceiMutation(s): 0 
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