5XXU image
Deposition Date 2017-07-05
Release Date 2017-08-30
Last Version Date 2024-10-09
Entry Detail
PDB ID:
5XXU
Keywords:
Title:
Small subunit of Toxoplasma gondii ribosome
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
3.35 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:18S RNA
Chain IDs:A (auth: 2)
Chain Length:1791
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS2
Chain IDs:B (auth: A)
Chain Length:287
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS1
Chain IDs:C (auth: B)
Chain Length:82
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS5
Chain IDs:D (auth: C)
Chain Length:68
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS3
Chain IDs:E (auth: D)
Chain Length:54
Number of Molecules:1
Biological Source:Toxoplasma gondii
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS4
Chain IDs:F (auth: E)
Chain Length:59
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS7
Chain IDs:G (auth: F)
Chain Length:154
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS6
Chain IDs:H (auth: G)
Chain Length:256
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS7
Chain IDs:I (auth: H)
Chain Length:196
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS8
Chain IDs:J (auth: I)
Chain Length:205
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS4
Chain IDs:K (auth: J)
Chain Length:188
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS10
Chain IDs:L (auth: K)
Chain Length:152
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS17
Chain IDs:M (auth: L)
Chain Length:161
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS12
Chain IDs:N (auth: M)
Chain Length:39
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS15
Chain IDs:O (auth: N)
Chain Length:151
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS11
Chain IDs:P (auth: O)
Chain Length:156
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS19
Chain IDs:Q (auth: P)
Chain Length:150
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS9
Chain IDs:R (auth: Q)
Chain Length:148
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS17
Chain IDs:S (auth: R)
Chain Length:132
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS13
Chain IDs:T (auth: S)
Chain Length:156
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS19
Chain IDs:U (auth: T)
Chain Length:160
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS10
Chain IDs:V (auth: U)
Chain Length:233
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS21
Chain IDs:W (auth: V)
Chain Length:82
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS8
Chain IDs:X (auth: W)
Chain Length:130
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS12
Chain IDs:Y (auth: X)
Chain Length:143
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS24
Chain IDs:Z (auth: Y)
Chain Length:135
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS25
Chain IDs:AA (auth: Z)
Chain Length:161
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS26
Chain IDs:BA (auth: a)
Chain Length:287
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS27
Chain IDs:CA (auth: b)
Chain Length:82
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS28
Chain IDs:DA (auth: c)
Chain Length:68
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein uS14
Chain IDs:EA (auth: d)
Chain Length:54
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS30
Chain IDs:FA (auth: e)
Chain Length:59
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eS31
Chain IDs:GA (auth: f)
Chain Length:154
Number of Molecules:1
Biological Source:Toxoplasma gondii
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein eL41
Chain IDs:HA (auth: m)
Chain Length:39
Number of Molecules:1
Biological Source:Toxoplasma gondii
Ligand Molecules
Primary Citation
Cryo-EM structures of the 80S ribosomes from human parasites Trichomonas vaginalis and Toxoplasma gondii
Cell Res. 27 1275 1288 (2017)
PMID: 28809395 DOI: 10.1038/cr.2017.104

Abstact

As an indispensable molecular machine universal in all living organisms, the ribosome has been selected by evolution to be the natural target of many antibiotics and small-molecule inhibitors. High-resolution structures of pathogen ribosomes are crucial for understanding the general and unique aspects of translation control in disease-causing microbes. With cryo-electron microscopy technique, we have determined structures of the cytosolic ribosomes from two human parasites, Trichomonas vaginalis and Toxoplasma gondii, at resolution of 3.2-3.4 Å. Although the ribosomal proteins from both pathogens are typical members of eukaryotic families, with a co-evolution pattern between certain species-specific insertions/extensions and neighboring ribosomal RNA (rRNA) expansion segments, the sizes of their rRNAs are sharply different. Very interestingly, rRNAs of T. vaginalis are in size comparable to prokaryotic counterparts, with nearly all the eukaryote-specific rRNA expansion segments missing. These structures facilitate the dissection of evolution path for ribosomal proteins and RNAs, and may aid in design of novel translation inhibitors.

Legend

Protein

Chemical

Disease

Primary Citation of related structures