6QM8

Leishmania tarentolae proteasome 20S subunit apo structure


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Preclinical candidate for the treatment of visceral leishmaniasis that acts through proteasome inhibition.

Wyllie, S.Brand, S.Thomas, M.De Rycker, M.Chung, C.W.Pena, I.Bingham, R.P.Bueren-Calabuig, J.A.Cantizani, J.Cebrian, D.Craggs, P.D.Ferguson, L.Goswami, P.Hobrath, J.Howe, J.Jeacock, L.Ko, E.J.Korczynska, J.MacLean, L.Manthri, S.Martinez, M.S.Mata-Cantero, L.Moniz, S.Nuhs, A.Osuna-Cabello, M.Pinto, E.Riley, J.Robinson, S.Rowland, P.Simeons, F.R.C.Shishikura, Y.Spinks, D.Stojanovski, L.Thomas, J.Thompson, S.Viayna Gaza, E.Wall, R.J.Zuccotto, F.Horn, D.Ferguson, M.A.J.Fairlamb, A.H.Fiandor, J.M.Martin, J.Gray, D.W.Miles, T.J.Gilbert, I.H.Read, K.D.Marco, M.Wyatt, P.G.

(2019) Proc Natl Acad Sci U S A 116: 9318-9323

  • DOI: 10.1073/pnas.1820175116
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Visceral leishmaniasis (VL), caused by the protozoan parasites <i>Leishmania donovani </i> and <i>Leishmania infantum </i>, is one of the major parasitic diseases worldwide. There is an urgent need for new drugs to treat VL, because current therapi ...

    Visceral leishmaniasis (VL), caused by the protozoan parasites Leishmania donovani and Leishmania infantum , is one of the major parasitic diseases worldwide. There is an urgent need for new drugs to treat VL, because current therapies are unfit for purpose in a resource-poor setting. Here, we describe the development of a preclinical drug candidate, GSK3494245/DDD01305143/compound 8, with potential to treat this neglected tropical disease. The compound series was discovered by repurposing hits from a screen against the related parasite Trypanosoma cruzi Subsequent optimization of the chemical series resulted in the development of a potent cidal compound with activity against a range of clinically relevant L. donovani and L. infantum isolates. Compound 8 demonstrates promising pharmacokinetic properties and impressive in vivo efficacy in our mouse model of infection comparable with those of the current oral antileishmanial miltefosine. Detailed mode of action studies confirm that this compound acts principally by inhibition of the chymotrypsin-like activity catalyzed by the β5 subunit of the L. donovani proteasome. High-resolution cryo-EM structures of apo and compound 8-bound Leishmania tarentolae 20S proteasome reveal a previously undiscovered inhibitor site that lies between the β4 and β5 proteasome subunits. This induced pocket exploits β4 residues that are divergent between humans and kinetoplastid parasites and is consistent with all of our experimental and mutagenesis data. As a result of these comprehensive studies and due to a favorable developability and safety profile, compound 8 is being advanced toward human clinical trials.


    Organizational Affiliation

    Drug Discovery Unit, Wellcome Centre for Anti-Infectives Research, Division of Biological Chemistry and Drug Discovery, School of Life Sciences, University of Dundee, Dundee DD1 5EH, United Kingdom; k.read@dundee.ac.uk maria.m.marco@gsk.com p.g.wyatt@dundee.ac.uk.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Proteasome alpha1 chain
A, O
250Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Proteasome alpha2 chain
B, P
231Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Proteasome alpha3 chain
C, Q
285Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Proteasome alpha4 chain
D, R
248Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Proteasome alpha5 chain
E, S
344Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Proteasome alpha6 chain
F, T
428Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
Proteasome alpha7 chain
G, U
238Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
Proteasome beta1 chain
H, V
283Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Proteasome beta2 chain
I, W
254Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Proteasome beta3 chain
J, X
205Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
Proteasome beta4 chain
K, Y
206Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
Proteasome beta5 chain
L, Z
302Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
Proteasome beta6 chain
M, a
339Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
Proteasome beta7 chain
N, b
220Leishmania tarentolaeMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-04-17
    Type: Initial release
  • Version 1.1: 2019-05-22
    Changes: Data collection, Database references
  • Version 1.2: 2019-12-18
    Changes: Other