6SG9

Head domain of the mt-SSU assemblosome from Trypanosoma brucei


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 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

Mitoribosomal small subunit biogenesis in trypanosomes involves an extensive assembly machinery.

Saurer, M.Ramrath, D.J.F.Niemann, M.Calderaro, S.Prange, C.Mattei, S.Scaiola, A.Leitner, A.Bieri, P.Horn, E.K.Leibundgut, M.Boehringer, D.Schneider, A.Ban, N.

(2019) Science 365: 1144-1149

  • DOI: https://doi.org/10.1126/science.aaw5570
  • Primary Citation of Related Structures:  
    6SG9, 6SGA, 6SGB

  • PubMed Abstract: 

    Mitochondrial ribosomes (mitoribosomes) are large ribonucleoprotein complexes that synthesize proteins encoded by the mitochondrial genome. An extensive cellular machinery responsible for ribosome assembly has been described only for eukaryotic cytosolic ribosomes. Here we report that the assembly of the small mitoribosomal subunit in Trypanosoma brucei involves a large number of factors and proceeds through the formation of assembly intermediates, which we analyzed by using cryo-electron microscopy. One of them is a 4-megadalton complex, referred to as the small subunit assemblosome, in which we identified 34 factors that interact with immature ribosomal RNA (rRNA) and recognize its functionally important regions. The assembly proceeds through large-scale conformational changes in rRNA coupled with successive incorporation of mitoribosomal proteins, providing an example for the complexity of the ribosomal assembly process in mitochondria.


  • Organizational Affiliation

    Department of Biology, Institute of Molecular Biology and Biophysics, ETH Zurich, Otto-Stern-Weg 5, CH-8093 Zurich, Switzerland.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
uS5mA [auth CE]435Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
uS11mB [auth CK]326Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q389T7 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
mS38C [auth Cn]250Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q57VQ9 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF18D [auth FJ]362Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for D0A8R9 (Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972))
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF28E [auth FY]188Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for A0A3L6L5M9 (Trypanosoma brucei equiperdum)
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF30F [auth Fa]171Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q57VU7 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
uS3mH [auth CC]74Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
uS9mI [auth CI]443Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q57W62 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
uS10mJ [auth CJ]817Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
uS14mK [auth CN]166Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q580I0 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
uS19mL [auth CS]244Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
mS29M [auth Cg]498Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q585C2 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
mS33N [auth Ci]181Trypanosoma brucei bruceiMutation(s): 0 
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Find proteins for Q57WW0 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
mS35O [auth Ck]874Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
mS49P [auth DB]1,181Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
mS50Q [auth DC]1,165Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
mS52R [auth DE]747Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q386Q7 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
mS53S [auth DF]666Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
mS54T [auth DG]631Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
mS55 (KRIPP8)U [auth DH]581Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
mS57V [auth DJ]396Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q584U8 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
mS58W [auth DK]324Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
mS67X [auth DT]247Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q586G5 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
mS69Y [auth DV]183Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q57UZ6 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
mS70Z [auth DW]179Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
mS71AA [auth DX]169Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q383G5 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
mS72BA [auth DY]163Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q57YD4 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF1 (RSM22)CA [auth F1]1,041Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q385R2 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF4DA [auth F4]811Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF12 (KRIPP18)EA [auth FD]579Trypanosoma brucei bruceiMutation(s): 0 
UniProt
Find proteins for Q583U2 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1))
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF14FA [auth FF]474Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF15GA [auth FG]463Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF16HA [auth FH]457Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF17IA [auth FI]445Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF19JA [auth FK]372Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF20KA [auth FL]353Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF25LA [auth FV]264Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
mt-SAF34MA [auth Fe]123Trypanosoma brucei bruceiMutation(s): 0 
UniProt
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Entity ID: 40
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-aNA [auth Ua]70Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-bOA [auth Ub]42Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-cPA [auth Uc]12Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-dQA [auth Ud]59Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-eRA [auth Ue]29Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-fSA [auth Uf]9Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-gTA [auth Ug]167Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-hUA [auth Uh]255Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-iVA [auth Ui]32Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-jWA [auth Uj]19Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-kXA [auth Uk]27Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-lYA [auth Ul]14Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-mZA [auth Um]11Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
UNK-xAB [auth Ux]108Trypanosoma brucei bruceiMutation(s): 0 
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Entity ID: 7
MoleculeChains LengthOrganismImage
9S rRNAG [auth CA]802Trypanosoma brucei brucei
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Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GTP
Query on GTP

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BB [auth CgA]GUANOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O14 P3
XKMLYUALXHKNFT-UUOKFMHZSA-N
SAH
Query on SAH

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EB [auth F1B],
FB [auth FFA]
S-ADENOSYL-L-HOMOCYSTEINE
C14 H20 N6 O5 S
ZJUKTBDSGOFHSH-WFMPWKQPSA-N
ZN
Query on ZN

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DB [auth F1A],
GB [auth FGA],
HB [auth FLA],
IB [auth FLB],
JB [auth FeA]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG
Query on MG

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CB [auth CgB]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerland--

Revision History  (Full details and data files)

  • Version 1.0: 2019-09-18
    Type: Initial release
  • Version 1.1: 2019-09-25
    Changes: Data collection, Database references