8P0T | pdb_00008p0t

CryoEM structure of 20S Trichomonas vaginalis proteasome in complex with proteasome inhibitor CP-17


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.2 of the entry. See complete history


Literature

Structural elucidation of recombinant Trichomonas vaginalis 20S proteasome bound to covalent inhibitors.

Silhan, J.Fajtova, P.Bartosova, J.Hurysz, B.M.Almaliti, J.Miyamoto, Y.Eckmann, L.Gerwick, W.H.O'Donoghue, A.J.Boura, E.

(2024) Nat Commun 15: 8621-8621

  • DOI: https://doi.org/10.1038/s41467-024-53022-w
  • Primary Citation of Related Structures:  
    8OIX, 8P0T

  • PubMed Abstract: 

    The proteasome is a proteolytic enzyme complex essential for protein homeostasis in mammalian cells and protozoan parasites like Trichomonas vaginalis (Tv), the cause of the most common, non-viral sexually transmitted disease. Tv and other protozoan 20S proteasomes have been validated as druggable targets for antimicrobials. However, low yields and purity of the native proteasome have hindered studies of the Tv 20S proteasome (Tv20S). We address this challenge by creating a recombinant protozoan proteasome by expressing all seven α and seven β subunits of Tv20S alongside the Ump-1 chaperone in insect cells. The recombinant Tv20S displays biochemical equivalence to its native counterpart, confirmed by various assays. Notably, the marizomib (MZB) inhibits all catalytic subunits of Tv20S, while the peptide inhibitor carmaphycin-17 (CP-17) specifically targets β2 and β5. Cryo-electron microscopy (cryo-EM) unveils the structures of Tv20S bound to MZB and CP-17 at 2.8 Å. These findings explain MZB's low specificity for Tv20S compared to the human proteasome and demonstrate CP-17's higher specificity. Overall, these data provide a structure-based strategy for the development of specific Tv20S inhibitors to treat trichomoniasis.


  • Organizational Affiliation
    • Institute of Organic Chemistry and Biochemistry AS CR, v.v.i., Prague, Czech Republic.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Family T1, proteasome alpha subunit, threonine peptidase
A, O
241Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_267300
UniProt
Find proteins for A2F568 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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UniProt GroupA2F568
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Family T1, proteasome alpha subunit, threonine peptidase
B, P
232Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_103780
UniProt
Find proteins for A2FJV7 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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UniProt GroupA2FJV7
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit alpha type
C, Q
251Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_058050
UniProt
Find proteins for A2FT79 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit alpha type
D, R
235Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_340740
UniProt
Find proteins for A2DTN3 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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UniProt GroupA2DTN3
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit alpha type
E, S
251Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_293540
UniProt
Find proteins for A2FCM7 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Family T1, proteasome alpha subunit, threonine peptidase
F, T
233Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_206040
UniProt
Find proteins for A2E1I9 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Family T1, proteasome alpha subunit, threonine peptidase
G, U
240Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_185200
UniProt
Find proteins for A2D8G5 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta
H, V
204Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_127250
UniProt
Find proteins for A2E7Z2 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
proteasome endopeptidase complex
I, W
243Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_231360
EC: 3.4.25.1
UniProt
Find proteins for A2F2T6 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta
J, X
206Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_286960
UniProt
Find proteins for A2F3H9 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta
K, Y
191Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_403280
UniProt
Find proteins for A2F8W4 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit beta
L, Z
202Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_013010
UniProt
Find proteins for A2DD57 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Proteasome subunit betaAA [auth a],
M
224Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_152400
UniProt
Find proteins for A2F716 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Family T1, proteasome beta subunit, threonine peptidaseBA [auth b],
N
244Trichomonas vaginalis G3Mutation(s): 0 
Gene Names: TVAG_290960
UniProt
Find proteins for A2F3X4 (Trichomonas vaginalis (strain ATCC PRA-98 / G3))
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Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.65 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.20.1_4487:

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
H2020 Marie Curie Actions of the European CommissionEuropean Union846688

Revision History  (Full details and data files)

  • Version 1.0: 2024-05-22
    Type: Initial release
  • Version 1.1: 2024-10-23
    Changes: Data collection, Database references, Structure summary
  • Version 1.2: 2024-11-20
    Changes: Data collection