7AIH

The Large subunit of the Kinetoplastid mitochondrial ribosome


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

Structure of the mature kinetoplastids mitoribosome and insights into its large subunit biogenesis.

Soufari, H.Waltz, F.Parrot, C.Durrieu-Gaillard, S.Bochler, A.Kuhn, L.Sissler, M.Hashem, Y.

(2020) Proc Natl Acad Sci U S A 117: 29851-29861

  • DOI: https://doi.org/10.1073/pnas.2011301117
  • Primary Citation of Related Structures:  
    7AIH, 7AM2, 7ANE, 7AOR

  • PubMed Abstract: 

    Kinetoplastids are unicellular eukaryotic parasites responsible for such human pathologies as Chagas disease, sleeping sickness, and leishmaniasis. They have a single large mitochondrion, essential for the parasite survival. In kinetoplastid mitochondria, most of the molecular machineries and gene expression processes have significantly diverged and specialized, with an extreme example being their mitochondrial ribosomes. These large complexes are in charge of translating the few essential mRNAs encoded by mitochondrial genomes. Structural studies performed in Trypanosoma brucei already highlighted the numerous peculiarities of these mitoribosomes and the maturation of their small subunit. However, several important aspects mainly related to the large subunit (LSU) remain elusive, such as the structure and maturation of its ribosomal RNA. Here we present a cryo-electron microscopy study of the protozoans Leishmania tarentolae and Trypanosoma cruzi mitoribosomes. For both species, we obtained the structure of their mature mitoribosomes, complete rRNA of the LSU, as well as previously unidentified ribosomal proteins. In addition, we introduce the structure of an LSU assembly intermediate in the presence of 16 identified maturation factors. These maturation factors act on both the intersubunit and the solvent sides of the LSU, where they refold and chemically modify the rRNA and prevent early translation before full maturation of the LSU.


  • Organizational Affiliation

    Institut Européen de Chimie et Biologie, U1212 INSERM, UMR5320 CNRS, Université de Bordeaux, F-33600 Pessac, France.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L3-like protein467Leishmania majorMutation(s): 0 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
uL4m436Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QGU6 (Leishmania major)
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
RIBOSOMAL_L9 domain-containing protein262Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
uL10m204Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QI77 (Leishmania major)
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Putative ribosomal protein L11346Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
50S ribosomal protein L13-like protein171Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal_L18e/L15P domain-containing protein374Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal_L16 domain-containing protein168Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Putative 50S ribosomal protein L17305Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
bL19m144Leishmania majorMutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
bL20194Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q192 (Leishmania major)
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
bL21m186Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
uL22m279Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
uL23m252Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QA05 (Leishmania major)
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
uL24m476Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
bL27m185Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QG34 (Leishmania major)
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
bL28m234Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q719 (Leishmania major)
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
uL29m480Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q9XZY7 (Leishmania major)
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
uL30m409Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q9U0Z7 (Leishmania major)
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
bL32m83Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q2W9 (Leishmania major)
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
bL33m118Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q2Q8 (Leishmania major)
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
bL35m151Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QCK6 (Leishmania major)
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
bL36m186Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q6A3 (Leishmania major)
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
mL38513Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q5A3 (Leishmania major)
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
mL40292Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q448 (Leishmania major)
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
mL41197Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q152 (Leishmania major)
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
mL94AA [auth BA]167Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
UABA [auth UA]203Leishmania majorMutation(s): 0 
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
mL95CA [auth BB]156Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
mL89DA [auth Aw]187Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
bL31mEA [auth Bj]185Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
mL76FA [auth An]331Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
mL74GA [auth Al]346Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
Peptidyl-prolyl cis-trans isomeraseHA [auth BI]266Leishmania majorMutation(s): 0 
EC: 5.2.1.8
UniProt
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
mL93IA [auth Az]152Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
mL86JA [auth At]183Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
mL96KA [auth BC]147Leishmania majorMutation(s): 0 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
L51_S25_CI-B8 domain-containing proteinLA [auth Ab]262Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
mL69MA [auth Ai]479Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
mL80NA [auth Ap]240Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
mL87OA [auth Au]186Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
mL42PA [auth Aa]195Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
mL79QA [auth Ao]284Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
mL70RA [auth BM]457Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
mL84SA [auth Ar]205Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
mL72TA [auth Aj]503Leishmania majorMutation(s): 0 
UniProt
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
Peptidyl-prolyl cis-trans isomeraseUA [auth BH]229Leishmania majorMutation(s): 0 
EC: 5.2.1.8
UniProt
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
mL75VA [auth Am]340Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QC22 (Leishmania major)
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
mL82WA [auth Aq]341Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QD92 (Leishmania major)
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
mL98XA [auth BE]118Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QE16 (Leishmania major)
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
mL73YA [auth Ak]323Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QEC8 (Leishmania major)
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
mL52,mL52ZA [auth BP]254Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QGE0 (Leishmania major)
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
mL49AB [auth Ad]237Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QIB3 (Leishmania major)
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
mL99BB [auth BF]109Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QIQ1 (Leishmania major)
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
mL88CB [auth Av]192Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QIT7 (Leishmania major)
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
mL63DB [auth Af]155Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QJB6 (Leishmania major)
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
mL85EB [auth As]249Leishmania majorMutation(s): 0 
UniProt
Find proteins for E9ABZ5 (Leishmania major)
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
mL53FB [auth Ae]311Leishmania majorMutation(s): 0 
UniProt
Find proteins for E9ACG2 (Leishmania major)
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
MRP-L46 domain-containing proteinGB [auth Ac]291Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QJ75 (Leishmania major)
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
mL68HB [auth Ah]570Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QC45 (Leishmania major)
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
mL97IB [auth BD]102Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QE11 (Leishmania major)
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
C2H2-type domain-containing proteinJB [auth Ay]174Leishmania majorMutation(s): 0 
UniProt
Find proteins for E9ADN7 (Leishmania major)
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
mL54/69KB [auth Ag]244Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q829 (Leishmania major)
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
LIM zinc-binding domain-containing proteinLB [auth Ax]216Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q7T1 (Leishmania major)
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
Putative ribosomal protein L2MB [auth BL]380Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4QIE1 (Leishmania major)
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
Putative ribosomal protein L14NB [auth BO]190Leishmania majorMutation(s): 0 
UniProt
Find proteins for Q4Q2G1 (Leishmania major)
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
mL100OB [auth BG]1,347Leishmania majorMutation(s): 0 
UniProt
Find proteins for A0A504WW14 (Leishmania donovani)
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
UBPB [auth UB]67Leishmania majorMutation(s): 0 
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Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
UCQB [auth UC]144Leishmania majorMutation(s): 0 
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Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
UDRB [auth UD]95Leishmania majorMutation(s): 0 
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Entity ID: 71
MoleculeChains LengthOrganismImage
Ribosomal RNASB [auth 1]9,070Leishmania major
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Experimental Data & Validation

Experimental Data

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

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)France--

Revision History  (Full details and data files)

  • Version 1.0: 2021-04-28
    Type: Initial release