7AOR

mt-SSU from Trypanosoma cruzi in complex with mt-IF-3.


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 2.0 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
mS35A [auth u]874Trypanosoma cruzi strain CL BrenerMutation(s): 0 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
mS33B [auth s]180Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4CTU7 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
mS29C [auth r]500Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DW24 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
uS19D [auth n]172Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4D583 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
uS14mE [auth h]166Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DRG2 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
uS10mF [auth e]818Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
mS72G [auth az]163Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
mS71H [auth ay]218Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
mS70I [auth ax]172Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
mS69J [auth aw]186Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Rhodanese domain-containing proteinK [auth au]247Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DX83 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
mS58L [auth ak]314Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
mS57M [auth aj]396Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DA51 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
mS55N [auth ag]581Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
mS54O [auth af]677Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4CVW1 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
mS53P [auth ae]678Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4D651 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
mS52Q [auth l]714Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4E2R4 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
mS50R [auth ac]1,152Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4CW80 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
mS49S [auth ab]1,175Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
mS51T [auth ad]810Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
bS18mU [auth m]319Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4E4E0 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
uS15mV [auth i]429Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DS13 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
uS11mW [auth f]325Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4CT44 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
uS8mX [auth c]285Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DY17 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
uS9mY [auth d]445Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DEW9 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
mS73Z [auth ba]217Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
mS68AA [auth av]237Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
mS66BA [auth at]259Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
AKAP7_NLS domain-containing proteinCA [auth ar]268Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
mS63DA [auth aq]299Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4E0X6 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
mS62EA [auth ap]277Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4D014 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
mS61FA [auth ao]283Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
mS56GA [auth ai]410Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
mS60HA [auth an]293Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
mS47IA [auth z]1,181Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
Sod_Fe_C domain-containing proteinJA [auth y]449Trypanosoma cruzi strain CL BrenerMutation(s): 0 
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
Superoxide dismutase, putativeKA [auth x]345Trypanosoma cruzi strain CL BrenerMutation(s): 0 
EC: 1.15.1.1
UniProt
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
Protein FYV4, mitochondrialLA [auth w]186Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
mS37MA [auth v]215Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
mS38NA [auth bb]238Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
Trafficking protein particle complex subunitOA [auth t]256Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
mS59PA [auth al]308Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
mS26QA [auth q]442Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DUA8 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
mS23RA [auth p]308Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DRR8 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
mS22SA [auth Ca]603Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4E4S6 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
bS21mTA [auth g]193Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DET1 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
bS16mUA [auth j]189Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4D6Y0 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
bS6mVA [auth b]160Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DZA7 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
MURF5WA [auth bd]90Trypanosoma cruzi strain CL BrenerMutation(s): 0 
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal_S5_C domain-containing proteinXA [auth a]434Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DYR0 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
mt-iF3YA [auth bc]376Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4D913 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
mS48ZA [auth aa]1,827Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4DVD2 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
30S Ribosomal protein S17-like proteinAB [auth k]309Trypanosoma cruziMutation(s): 0 
UniProt
Find proteins for A0A2V2XQ88 (Trypanosoma cruzi)
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosome protein S12BB [auth be]82Trypanosoma cruziMutation(s): 0 
UniProt
Find proteins for A0A2H4T2H0 (Trypanosoma cruzi)
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
mS65CB [auth as]261Trypanosoma cruzi strain CL BrenerMutation(s): 0 
UniProt
Find proteins for Q4D4G1 (Trypanosoma cruzi (strain CL Brener))
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Entity ID: 56
MoleculeChains LengthOrganismImage
RNA (478-MER)DB [auth A],
EB [auth 2]
8,129Trypanosoma cruzi strain CL Brener
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Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

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FB [auth r]GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
UTP (Subject of Investigation/LOI)
Query on UTP

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HB [auth aj]URIDINE 5'-TRIPHOSPHATE
C9 H15 N2 O15 P3
PGAVKCOVUIYSFO-XVFCMESISA-N
ZN
Query on ZN

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IB [auth at],
JB [auth at],
KB [auth y],
LB [auth aa]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG
Query on MG

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GB [auth r]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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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
  • Version 2.0: 2021-06-23
    Changes: Advisory, Database references, Polymer sequence, Source and taxonomy, Structure summary