ISDA: 9YUY

Deposition Date 2025-10-23

Release Date 2026-04-15

Last Version Date 2026-04-15

Entry Detail

PDB ID:

9YUY

Keywords:

HYDROLASE

Title:

Structure of the Plasmodium falciparum 20S proteasome in complex with a beta5-selective covalent syringolin analogue inhibitor.

Biological Source:

Source Organism(s):

Plasmodium falciparum 3D7 (Taxon ID: 36329)

Expression System(s):

Spodoptera frugiperda

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

2.70 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome endopeptidase comp
Gene (Uniprot):PF3D7_0807500
Chain IDs:Q (auth: A), W (auth: O)
Chain Length:260
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q8IAR3 Pfam ID:PF10584, PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome endopeptidase comp
Gene (Uniprot):PF3D7_0608500
Chain IDs:R (auth: B), X (auth: P)
Chain Length:265
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:C6KST3 Pfam ID:PF10584, PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Gene (Uniprot):PF3D7_1353800
Chain IDs:A (auth: C), I (auth: Q)
Chain Length:246
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q8IDG3 Pfam ID:PF10584, PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Gene (Uniprot):PF3D7_1353900
Chain IDs:B (auth: D), J (auth: R)
Chain Length:241
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q8IDG2 Pfam ID:PF10584, PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Gene (Uniprot):PF3D7_0727400
Chain IDs:C (auth: E), K (auth: S)
Chain Length:256
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q8IBI3 Pfam ID:PF10584, PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome endopeptidase comp
Gene (Uniprot):PF3D7_1474800
Chain IDs:D (auth: F), L (auth: T)
Chain Length:254
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q8IK90 Pfam ID:PF10584, PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit alpha type
Gene (Uniprot):PF3D7_0317000
Chain IDs:E (auth: G), M (auth: U)
Chain Length:252
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:O77396 Pfam ID:PF10584, PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta type-
Gene (Uniprot):PF3D7_0931800
Chain IDs:S (auth: H), Y (auth: V)
Chain Length:282
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q8I0U7 Pfam ID:PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Gene (Uniprot):PF3D7_1328100
Chain IDs:T (auth: I), Z (auth: W)
Chain Length:270
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q8I6T3 Pfam ID:PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Gene (Uniprot):PF3D7_0108000
Chain IDs:U (auth: J), AA (auth: X)
Chain Length:218
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q8I261 Pfam ID:PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Gene (Uniprot):PF3D7_1470900
Chain IDs:F (auth: K), N (auth: Y)
Chain Length:195
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q8IKC9 Pfam ID:PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Gene (Uniprot):PF3D7_1011400
Chain IDs:G (auth: L), O (auth: Z)
Chain Length:271
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q8IJT1 Pfam ID:PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Gene (Uniprot):PF3D7_0518300
Chain IDs:H (auth: M), P (auth: a)
Chain Length:260
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:A0A5K1K7U1 Pfam ID:PF00227

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Proteasome subunit beta
Gene (Uniprot):PF3D7_0803800
Chain IDs:V (auth: N), BA (auth: b)
Chain Length:265
Number of Molecules:2
Biological Source:Plasmodium falciparum 3D7

UniProt ID:Q7K6A9 Pfam ID:PF00227

Ligand Molecules

A1CY6

Primary Citation

An Optimized Route to the Syringolin Natural Products Enables Combinatorial Synthesis of Selective, Bioactive Inhibitors of the Plasmodium falciparum 20S Proteasome.

Gu, X, Fajtova, P, Yan, N.L, Saxena, A, Fei, F, Zhu, J, Tse, E, Melo, A, Yoo, E, Buchwald, N.H, Southworth, D.R, Bogyo, M, Derisi, J.L, Gestwicki, J.E, O'Donoghue, A.J, Sello, J.K.Show

J. Med. Chem. ? ? ? (2026)

PMID: 41921688 DOI: 10.1021/acs.jmedchem.5c03223

Primary Citation of related structures

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