5XYI image
Deposition Date 2017-07-08
Release Date 2017-08-30
Last Version Date 2024-03-27
Entry Detail
PDB ID:
5XYI
Keywords:
Title:
Small subunit of Trichomonas vaginalis 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
Chain IDs:A (auth: 2)
Chain Length:1577
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein SA
Gene (Uniprot):TVAG_240050, TVAG_474410
Chain IDs:B (auth: A)
Chain Length:118
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S3Ae, putative
Gene (Uniprot):TVAG_047460
Chain IDs:C (auth: B)
Chain Length:247
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Uncharacterized protein
Gene (Uniprot):TVAG_142440
Chain IDs:D (auth: C)
Chain Length:272
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S3, putative
Gene (Uniprot):TVAG_106800, TVAG_178710, TVAG_263040, TVAG_314710, TVAG_420140, TVAG_462690
Chain IDs:E (auth: D)
Chain Length:57
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S4
Gene (Uniprot):TVAG_335480
Chain IDs:F (auth: E)
Chain Length:62
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40s ribosomal protein S5-B, putative
Gene (Uniprot):TVAG_246200
Chain IDs:G (auth: F)
Chain Length:193
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S6
Gene (Uniprot):TVAG_033590, TVAG_282960, TVAG_462810, TVAG_486930
Chain IDs:H (auth: G)
Chain Length:216
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S7, putative
Gene (Uniprot):TVAG_143030, TVAG_375490
Chain IDs:I (auth: H)
Chain Length:168
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S8
Gene (Uniprot):TVAG_066030, TVAG_164160, TVAG_206300, TVAG_435430
Chain IDs:J (auth: I)
Chain Length:197
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Uncharacterized protein
Gene (Uniprot):TVAG_010560, TVAG_495360
Chain IDs:K (auth: J)
Chain Length:185
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Plectin/S10 domain containing protein
Gene (Uniprot):TVAG_329340
Chain IDs:L (auth: K)
Chain Length:141
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Uncharacterized protein
Gene (Uniprot):TVAG_113950, TVAG_131850, TVAG_313300, TVAG_401900, TVAG_419520
Chain IDs:M (auth: L)
Chain Length:155
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L7Ae, putative
Gene (Uniprot):TVAG_010250
Chain IDs:N (auth: M)
Chain Length:124
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S13, putative
Gene (Uniprot):TVAG_066760, TVAG_076150, TVAG_151780, TVAG_459150
Chain IDs:O (auth: N)
Chain Length:25
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S14
Chain IDs:P (auth: O)
Chain Length:159
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S19, putative
Gene (Uniprot):TVAG_055940, TVAG_074310, TVAG_126060, TVAG_208960
Chain IDs:Q (auth: P)
Chain Length:144
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S16, putative
Gene (Uniprot):TVAG_020040, TVAG_036220, TVAG_036300, TVAG_094760, TVAG_156650, TVAG_182810
Chain IDs:R (auth: Q)
Chain Length:140
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S17-B, putative
Gene (Uniprot):TVAG_040820, TVAG_258150, TVAG_453470, TVAG_474010
Chain IDs:S (auth: R)
Chain Length:129
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S13p/S18e, putative
Gene (Uniprot):TVAG_020480, TVAG_065040, TVAG_184530, TVAG_341090, TVAG_419040, TVAG_487360, TVAG_487930
Chain IDs:T (auth: S)
Chain Length:155
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S19e, putative
Gene (Uniprot):TVAG_352520, TVAG_352560, TVAG_352580, TVAG_352600
Chain IDs:U (auth: T)
Chain Length:148
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S10p/S20e, putative
Gene (Uniprot):TVAG_086300
Chain IDs:V (auth: U)
Chain Length:123
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S21
Gene (Uniprot):TVAG_022100
Chain IDs:W (auth: V)
Chain Length:89
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S15a
Gene (Uniprot):TVAG_006250, TVAG_462530
Chain IDs:X (auth: W)
Chain Length:130
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S23, putative
Gene (Uniprot):TVAG_071920, TVAG_109530, TVAG_109730, TVAG_159830, TVAG_198620, TVAG_249090, TVAG_305300, TVAG_430260
Chain IDs:Y (auth: X)
Chain Length:144
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein S24e, putative
Gene (Uniprot):TVAG_272960, TVAG_272970, TVAG_272980, TVAG_386300
Chain IDs:Z (auth: Y)
Chain Length:140
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Uncharacterized protein
Gene (Uniprot):TVAG_226630
Chain IDs:AA (auth: Z)
Chain Length:115
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S26
Gene (Uniprot):TVAG_040120, TVAG_061920, TVAG_164600, TVAG_242190, TVAG_277940, TVAG_302160, TVAG_333200, TVAG_335820, TVAG_347960
Chain IDs:BA (auth: a)
Chain Length:118
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S27
Gene (Uniprot):TVAG_064320
Chain IDs:CA (auth: b)
Chain Length:247
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Uncharacterized protein
Gene (Uniprot):TVAG_050990, TVAG_057380, TVAG_266850, TVAG_272940, TVAG_272950, TVAG_327180
Chain IDs:DA (auth: c)
Chain Length:272
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S29, putative
Gene (Uniprot):TVAG_107660, TVAG_131520, TVAG_357220, TVAG_366620, TVAG_393120, TVAG_490210
Chain IDs:EA (auth: d)
Chain Length:57
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S30
Gene (Uniprot):TVAG_222910
Chain IDs:FA (auth: e)
Chain Length:62
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Guanine nucleotide-binding protein beta subunit, putative
Gene (Uniprot):TVAG_151920
Chain IDs:GA (auth: g)
Chain Length:216
Number of Molecules:1
Biological Source:Trichomonas vaginalis
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:eL41
Chain IDs:HA (auth: n)
Chain Length:25
Number of Molecules:1
Biological Source:Trichomonas vaginalis
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.

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Protein

Chemical

Disease

Primary Citation of related structures