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- EMDB-6788: Small subunit of Trichomonas vaginalis ribosome -

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Basic information

Entry
Database: EMDB / ID: EMD-6788
TitleSmall subunit of Trichomonas vaginalis ribosome
Map data
Sample
  • Complex: Small subunit of Trichomonas vaginalis ribosome
    • RNA: x 1 types
    • Protein or peptide: x 33 types
Function / homology
Function and homology information


positive regulation of translational fidelity / endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / rescue of stalled ribosome / small-subunit processome / protein kinase C binding / mRNA 5'-UTR binding / ribosomal small subunit biogenesis ...positive regulation of translational fidelity / endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / rescue of stalled ribosome / small-subunit processome / protein kinase C binding / mRNA 5'-UTR binding / ribosomal small subunit biogenesis / ribosomal small subunit assembly / small ribosomal subunit rRNA binding / rRNA processing / cytosolic small ribosomal subunit / ribosome binding / small ribosomal subunit / cytosolic large ribosomal subunit / cytoplasmic translation / ribosome / rRNA binding / structural constituent of ribosome / translation / positive regulation of protein phosphorylation / mRNA binding / nucleolus / enzyme binding / RNA binding / zinc ion binding / metal ion binding / nucleus / cytosol
Similarity search - Function
: / : / Ribosomal protein L41 / Ribosomal protein L41 / Ribosomal protein S26e / Ribosomal protein S26e superfamily / Ribosomal protein S26e / Ribosomal protein S12e / Ribosomal protein S19e, conserved site / Ribosomal protein S19e signature. ...: / : / Ribosomal protein L41 / Ribosomal protein L41 / Ribosomal protein S26e / Ribosomal protein S26e superfamily / Ribosomal protein S26e / Ribosomal protein S12e / Ribosomal protein S19e, conserved site / Ribosomal protein S19e signature. / Ribosomal protein S2, eukaryotic / Ribosomal protein S21e / Ribosomal protein S21e superfamily / Ribosomal protein S21e / Ribosomal protein S5, eukaryotic/archaeal / Ribosomal protein S10, eukaryotic/archaeal / 40S Ribosomal protein S10 / Plectin/S10, N-terminal / Plectin/S10 domain / Ribosomal protein S2, eukaryotic/archaeal / Ribosomal protein S25 / S25 ribosomal protein / Ribosomal protein S17e, conserved site / Ribosomal protein S17e signature. / Ribosomal protein S8e subdomain, eukaryotes / 40S ribosomal protein S29/30S ribosomal protein S14 type Z / Ribosomal protein S30 / Ribosomal protein S30 / Ribosomal protein S3, eukaryotic/archaeal / Ribosomal protein S19e / Ribosomal protein S19e / Ribosomal_S19e / Ribosomal protein S27e signature. / 40S ribosomal protein S4, C-terminal domain / 40S ribosomal protein S4 C-terminus / Ribosomal protein S19A/S15e / Ribosomal protein S17e / Ribosomal protein S17e-like superfamily / Ribosomal S17 / Ribosomal protein S6, eukaryotic / Ribosomal protein S4e, N-terminal / RS4NT (NUC023) domain / Ribosomal protein S7e / Ribosomal protein S7e / 40S ribosomal protein S11, N-terminal / Ribosomal protein S4, KOW domain / Ribosomal_S17 N-terminal / Ribosomal protein S4e / Ribosomal protein S4e, central region / Ribosomal protein S4e, central domain superfamily / Ribosomal family S4e / Ribosomal protein S24e / Ribosomal protein S23, eukaryotic/archaeal / Ribosomal protein S24e / Ribosomal protein S27 / Ribosomal protein S27 / Ribosomal protein S8e / Ribosomal protein S3Ae / Ribosomal protein S17, archaeal/eukaryotic / Ribosomal protein S28e conserved site / Ribosomal S3Ae family / Ribosomal protein S28e signature. / Ribosomal S3Ae family / Ribosomal protein S28e / Ribosomal protein S28e / Ribosomal protein S6e / Ribosomal protein S5/S7, eukaryotic/archaeal / Ribosomal protein S6e / Ribosomal protein S6e / Ribosomal protein S13/S15, N-terminal / Ribosomal protein S15P / Ribosomal S13/S15 N-terminal domain / Ribosomal S13/S15 N-terminal domain / Ribosomal protein S4/S9, eukaryotic/archaeal / Ribosomal protein S8e/ribosomal biogenesis NSA2 / Ribosomal protein S8e / Ribosomal protein L7Ae/L30e/S12e/Gadd45 / Ribosomal protein L7Ae/L30e/S12e/Gadd45 family / Ribosomal protein S14/S29 / 50S ribosomal protein L30e-like / Ribosomal protein S2 signature 2. / Ribosomal protein S14, conserved site / Ribosomal protein S14 signature. / Ribosomal protein S2 signature 1. / KH domain / K Homology domain, type 2 / Ribosomal protein S3, C-terminal / Ribosomal protein S3, C-terminal domain / Ribosomal protein S3, C-terminal domain superfamily / Ribosomal protein S15/S19, conserved site / Ribosomal protein S19 signature. / Ribosomal protein S10 / Ribosomal protein S2, conserved site / Ribosomal protein S19/S15 / Ribosomal protein S19/S15, superfamily / Ribosomal protein S19 / Ribosomal protein S5, N-terminal, conserved site / Ribosomal protein S5 signature. / Ribosomal protein S2 / Ribosomal protein S2, flavodoxin-like domain superfamily
Similarity search - Domain/homology
40S ribosomal protein S23, putative / 40S ribosomal protein S16, putative / 40S ribosomal protein S13, putative / 40S ribosomal protein S6 / Ribosomal_S17_N domain-containing protein / Ribosomal protein S3, putative / Ribosomal protein S15a / Ribosomal_S4 domain-containing protein / 40S ribosomal protein S17-B, putative / Uncharacterized protein ...40S ribosomal protein S23, putative / 40S ribosomal protein S16, putative / 40S ribosomal protein S13, putative / 40S ribosomal protein S6 / Ribosomal_S17_N domain-containing protein / Ribosomal protein S3, putative / Ribosomal protein S15a / Ribosomal_S4 domain-containing protein / 40S ribosomal protein S17-B, putative / Uncharacterized protein / 40S ribosomal protein S26 / Ribosomal protein S13p/S18e, putative / Ribosomal protein S19, putative / 40S ribosomal protein S29, putative / 40S ribosomal protein S8 / 40s ribosomal protein S5-B, putative / Plectin/S10 domain containing protein / 40S ribosomal protein SA / Ribosomal protein S19e, putative / S5 DRBM domain-containing protein / Guanine nucleotide-binding protein beta subunit, putative / 40S ribosomal protein S25 / Ribosomal protein S24e, putative / Ribosomal protein L7Ae, putative / 40S ribosomal protein S27 / 40S ribosomal protein S4 / Ribosomal protein S10p/S20e, putative / 40S ribosomal protein S21 / 40S ribosomal protein S30 / 40S ribosomal protein S7 / Ribosomal protein S3Ae, putative / Small ribosomal subunit protein eS32A / Ribosomal protein S14
Similarity search - Component
Biological speciesTrichomonas vaginalis (eukaryote)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.35 Å
AuthorsLi Z / Guo Q / Zheng L / Ji Y / Xie Y / Lai D / Lun Z / Suo X / Gao N
CitationJournal: Cell Res / Year: 2017
Title: Cryo-EM structures of the 80S ribosomes from human parasites Trichomonas vaginalis and Toxoplasma gondii.
Authors: Zhifei Li / Qiang Guo / Lvqin Zheng / Yongsheng Ji / Yi-Ting Xie / De-Hua Lai / Zhao-Rong Lun / Xun Suo / Ning Gao /
Abstract: 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- ...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.
History
DepositionJul 8, 2017-
Header (metadata) releaseAug 30, 2017-
Map releaseAug 30, 2017-
UpdateOct 18, 2017-
Current statusOct 18, 2017Processing site: PDBj / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.036
  • Imaged by UCSF Chimera
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  • Surface view colored by height
  • Surface level: 0.036
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-5xyi
  • Surface level: 0.036
  • Imaged by UCSF Chimera
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

Downloads & links

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Map

FileDownload / File: emd_6788.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Voxel sizeX=Y=Z: 1.32 Å
Density
Contour LevelBy AUTHOR: 0.036 / Movie #1: 0.036
Minimum - Maximum-0.13911201 - 0.26773617
Average (Standard dev.)0.00029812296 (±0.005232952)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions320320320
Spacing320320320
CellA=B=C: 422.40002 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.321.321.32
M x/y/z320320320
origin x/y/z0.0000.0000.000
length x/y/z422.400422.400422.400
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS320320320
D min/max/mean-0.1390.2680.000

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Supplemental data

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Mask #1

Fileemd_6788_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

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Sample components

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Entire : Small subunit of Trichomonas vaginalis ribosome

EntireName: Small subunit of Trichomonas vaginalis ribosome
Components
  • Complex: Small subunit of Trichomonas vaginalis ribosome
    • RNA: 18S
    • Protein or peptide: 40S ribosomal protein SA
    • Protein or peptide: Ribosomal protein S3Ae, putativeRibosome
    • Protein or peptide: Uncharacterized protein
    • Protein or peptide: Ribosomal protein S3, putativeRibosome
    • Protein or peptide: 40S ribosomal protein S4
    • Protein or peptide: 40s ribosomal protein S5-B, putativeRibosome
    • Protein or peptide: 40S ribosomal protein S6
    • Protein or peptide: 40S ribosomal protein S7, putativeRibosome
    • Protein or peptide: 40S ribosomal protein S8
    • Protein or peptide: Uncharacterized protein
    • Protein or peptide: Plectin/S10 domain containing protein
    • Protein or peptide: Uncharacterized protein
    • Protein or peptide: Ribosomal protein L7Ae, putativeRibosome
    • Protein or peptide: 40S ribosomal protein S13, putativeRibosome
    • Protein or peptide: Ribosomal protein S14
    • Protein or peptide: Ribosomal protein S19, putativeRibosome
    • Protein or peptide: 40S ribosomal protein S16, putativeRibosome
    • Protein or peptide: 40S ribosomal protein S17-B, putativeRibosome
    • Protein or peptide: Ribosomal protein S13p/S18e, putativeRibosome
    • Protein or peptide: Ribosomal protein S19e, putativeRibosome
    • Protein or peptide: Ribosomal protein S10p/S20e, putativeRibosome
    • Protein or peptide: 40S ribosomal protein S21
    • Protein or peptide: Ribosomal protein S15aRibosome
    • Protein or peptide: 40S ribosomal protein S23, putativeRibosome
    • Protein or peptide: Ribosomal protein S24e, putativeRibosome
    • Protein or peptide: Uncharacterized protein
    • Protein or peptide: 40S ribosomal protein S26
    • Protein or peptide: 40S ribosomal protein S27
    • Protein or peptide: Uncharacterized protein
    • Protein or peptide: 40S ribosomal protein S29, putativeRibosome
    • Protein or peptide: 40S ribosomal protein S30
    • Protein or peptide: Guanine nucleotide-binding protein beta subunit, putative
    • Protein or peptide: eL41

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Supramolecule #1: Small subunit of Trichomonas vaginalis ribosome

SupramoleculeName: Small subunit of Trichomonas vaginalis ribosome / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Trichomonas vaginalis (eukaryote)

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Macromolecule #1: 18S

MacromoleculeName: 18S / type: rna / ID: 1 / Number of copies: 1
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 508.656188 KDa
SequenceString: ACUUGGUUGA UCCUGCCAAG GAAGCACACU UAGGUCAUAG AUUAAGCCAU GCAAGUGUUA GUUCAGGUAA CGAAACUGCG AAUAGCUCA UUAAUACGCU CAGAAUCUAU UUGGCGGCGA CCAACAGGUC UUAAAUGGAU AGCAGCAGCA ACUCUGGUGC U AAUACAUG ...String:
ACUUGGUUGA UCCUGCCAAG GAAGCACACU UAGGUCAUAG AUUAAGCCAU GCAAGUGUUA GUUCAGGUAA CGAAACUGCG AAUAGCUCA UUAAUACGCU CAGAAUCUAU UUGGCGGCGA CCAACAGGUC UUAAAUGGAU AGCAGCAGCA ACUCUGGUGC U AAUACAUG CGAUUGUUUC UCCAGAUGUG AAUUAUGGAG GAAAAGUUGA CCUCAUCAGA GGCACGCCAU UCGACUGAGU GA CCUAUCA GCUUGUACUU AGGGUCUUUA CCUAGGUAGG CUAUCACGGG UAACGGGCGG UUACCGUCGG ACUGCCGGAG AAG GCGCCU GAGAGAUAGC GACUAUAUCC ACGGGUAGCA GCAGGCGCGA AACUUUCCCA CUCGAGACUU UCGGAGGAGG UAAU GACCA GUUCCAUUGG UGCCUUUUGG UACUGUGGAU AGGGGUACGG UUUUCCACCG UACCGAAACC UAGCAGAGGG CCAGU CUGG UGCCAGCAGC UGCGGUAAUU CCAGCUCUGC GAGUUUGCUC CCAUAUUGUU GCAGUUAAAA CGCCCGUAGU CUGAAU UGG CCAGCAAUGG UCGUACGUAU UUUUACGUUC ACUGUGAACA AAUCAGGACG CUUAGAGUAU GGCCACAUGA AUGACUC AG CGCAGUAUGA AGUCUUUGUU UUCUUCCGAA AACAAGCUCA AUGAGAGCCA UCGGGGGUAG AUCUAUCUCA UGACGAGU G GUGGAAUACU UUGACUCAUG AGAGAGAAGC UGAGGCGAAG GCGUCUACCU AGAGGGUUUC UGUCGAUCAA GGGCGAGAG UAGGAGUAUC CAACAGGAUU AGAGACCCUG GUAGUUCCUA CCUUAAACGA UGCCGACAGG AGUUUGUCAU UUGUUAAUGG CAGAAUCUU UGGAGAAAUC AUAGUUCUUG GGCUCUGGGG GAAAUACGAC CGCAAGGCUG AAACUUGAAG GAAUUGACGG A AGGGCACA CCAGGGGUGG AGCCUGUGGC UUAAUUUGAA UCAACACGGG GAAACUACCC AGGACCAGAU GUUUUUUAUG AC UGACAGG CUUCGGGUCU UUCAGGAUAU UGUUUUUGGU GGUGCAUGGC CGUUGGUGGU GCGUGGGUUG ACCUGUCUAG CGU UGAUUC AGCUAACGAG CGAGAUUAUC GCCAAUUAUU UACUUUGCCG AAGUCCUUCG GUUAAAGUUC UAAUUGGGAC UCCC UGCGA UUUUAGCAGG UGGAAGAGGG UAGCAAUAAC AGGUCCGUGA UGCCCUUUAG AUGCUCUGGG CUGCACGCGU GCUAC AAUG UUAGGAUCAA UAGGACUGCG AGCCUGAGAG GGUGCGCUAC UCUUAUAAUC CCUAACGUAG UUGGGAUUGA CGUUUG UAA UCAGCGUCAU GAACCAGGAA UCCCUUGUAA AUGUGUGUCA ACAACGCACG UUGAAUACGU CCCUGCCCUU UGUACAC AC CGCCCGUCGC UCCUACCGAU UGGAUGACUC GGUGAAAUCA CCGGAUGCUU ACGAGCAGAA AGUGAUUAAA UCACGUUA U CUAGAGGAAG GAGAAGUCGU AACAAGGUAA CGGUAGGUGA ACCUGCCGUU GGAUCA

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Macromolecule #2: 40S ribosomal protein SA

MacromoleculeName: 40S ribosomal protein SA / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 28.584676 KDa
SequenceString: MTTAANADRE AVIKMMLAAK VYLGSTNLSF GMKPYVFTCR KDGTHVINLA MTYEKIKLAA RMIYAVEEPK DVLAISTKSF GTRAVHKFA EFLGANYVEQ RFTPGLFTNY SIKNFCEPRL MIVCDPNTDS QAVHEAAYAN IPCIALCDTD AHLDYVDCVI P CNTKNKNS ...String:
MTTAANADRE AVIKMMLAAK VYLGSTNLSF GMKPYVFTCR KDGTHVINLA MTYEKIKLAA RMIYAVEEPK DVLAISTKSF GTRAVHKFA EFLGANYVEQ RFTPGLFTNY SIKNFCEPRL MIVCDPNTDS QAVHEAAYAN IPCIALCDTD AHLDYVDCVI P CNTKNKNS MGLVMWLLTR EVLRLRGALT RTQEWSVLPD LFFYRDAADE AKIAEALEAE GEETVSEEGA IINAAVPKAE IK AGATNEE WENKQEWDA

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Macromolecule #3: Ribosomal protein S3Ae, putative

MacromoleculeName: Ribosomal protein S3Ae, putative / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 28.085471 KDa
SequenceString: MGASKQQRPK TSKKIKQDSF IKKEWRHVMV PAYFTGKHDI GVTVSNKCAR GRVPMDYVNN RVWELSHADM VNDLSHAYRL FSWRSIAAG SEVYTQFAGM RLTHDKLDSI MRKYRTLINA SVDAKTADGF ILRLFTVGFT KKLANSHKNH TYANSHKARQ V RDVMVKCL ...String:
MGASKQQRPK TSKKIKQDSF IKKEWRHVMV PAYFTGKHDI GVTVSNKCAR GRVPMDYVNN RVWELSHADM VNDLSHAYRL FSWRSIAAG SEVYTQFAGM RLTHDKLDSI MRKYRTLINA SVDAKTADGF ILRLFTVGFT KKLANSHKNH TYANSHKARQ V RDVMVKCL TDACESNGVE QLCKDFVDEK IENEIVEKCK QICQIEGVYI TKVKVIKAPA LSNEQVKVLK ISKDAAQLSL AP TERPAEE

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Macromolecule #4: Uncharacterized protein

MacromoleculeName: Uncharacterized protein / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 30.083736 KDa
SequenceString: MSTQQAAPVE AQAQAPQEQQ QLRGEMRGRR EGRGPRGPRA PRGQQKGGWQ PRTKLGRLVK SGKIKSIEEI FYHAIPIKEA EIVEHLLGE DLKDEIMKIM PVQKQTRAGQ RTRFKAIAAV GDGKGHIGLG IKTAAEVANA IKGATIYAKL SILPVRRGYW G NKIGLPHT ...String:
MSTQQAAPVE AQAQAPQEQQ QLRGEMRGRR EGRGPRGPRA PRGQQKGGWQ PRTKLGRLVK SGKIKSIEEI FYHAIPIKEA EIVEHLLGE DLKDEIMKIM PVQKQTRAGQ RTRFKAIAAV GDGKGHIGLG IKTAAEVANA IKGATIYAKL SILPVRRGYW G NKIGLPHT VPNTVTGKCG SIRMRLIPAP RGSGIVAGTA AKKLLTMAGF EDLFTSSLGH TKTTFNFLVA TYKAMEETFK FL TPDQWED RAFEEHPFVK NSDWLHGKKK VDAEE

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Macromolecule #5: Ribosomal protein S3, putative

MacromoleculeName: Ribosomal protein S3, putative / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 24.505658 KDa
SequenceString: MKAQRCTKVR RIIETGLFYA ELNELLTREL TKEGYGGCEV RQTPTRTEII IKAANTKEFV DNHGRRLQEV RMMIQKRWRL KEDSLEIFI DRIQRKGLSA LNQLESLRYK LIARIPARRA AYSIIRFVMD AGARGCEVAI SGKLRGARAS TSKYKEGYMV K SGDVTKQF ...String:
MKAQRCTKVR RIIETGLFYA ELNELLTREL TKEGYGGCEV RQTPTRTEII IKAANTKEFV DNHGRRLQEV RMMIQKRWRL KEDSLEIFI DRIQRKGLSA LNQLESLRYK LIARIPARRA AYSIIRFVMD AGARGCEVAI SGKLRGARAS TSKYKEGYMV K SGDVTKQF VTQAVGHIPM KQATIGIRVL IMLAQDPSGI SGPKESQPDV IKVHEAKD

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Macromolecule #6: 40S ribosomal protein S4

MacromoleculeName: 40S ribosomal protein S4 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 28.589561 KDa
SequenceString: MPRCQRFHLK RLTAPHHWLL AKSAGKFASH PSTGPHKLRE CLPINIFLRD RLKYALTAKE AVAIVKRRLV KVDGKVRTNY RYPTGLMDV IGLGKSNELF RIIYDCKGRF CVHHIEAKEA SFKLLRVNQF KIGAKGIPHV VTHDGRTISY VDPSVRVHDA L KFNIKTGE ...String:
MPRCQRFHLK RLTAPHHWLL AKSAGKFASH PSTGPHKLRE CLPINIFLRD RLKYALTAKE AVAIVKRRLV KVDGKVRTNY RYPTGLMDV IGLGKSNELF RIIYDCKGRF CVHHIEAKEA SFKLLRVNQF KIGAKGIPHV VTHDGRTISY VDPSVRVHDA L KFNIKTGE VESVIKFKVG DVAMVTAGGN VGRVGTIQKI EKQMASFDIV HLKDTSGAVF ATRIMNVFVI GENEHPLISL PA REGVRPS ILEGINQE

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Macromolecule #7: 40s ribosomal protein S5-B, putative

MacromoleculeName: 40s ribosomal protein S5-B, putative / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 21.672889 KDa
SequenceString: MEGVKLFGKY DYSDVDFSQL DPALVDYISV HEKQHVMVPH TAGRYVHKRF QKVSCPLVER LCNHLMSRGR NTGKKLLAIR IVEHAFDII ALSTGQNPIV TFVKGVQYCG AREDSTRIGV GGTVRRQACD VSPLRRIDQA LSLITEGVRK AAFRSSRNIA E CLADELIA ...String:
MEGVKLFGKY DYSDVDFSQL DPALVDYISV HEKQHVMVPH TAGRYVHKRF QKVSCPLVER LCNHLMSRGR NTGKKLLAIR IVEHAFDII ALSTGQNPIV TFVKGVQYCG AREDSTRIGV GGTVRRQACD VSPLRRIDQA LSLITEGVRK AAFRSSRNIA E CLADELIA ASNNDQTSYA CRKKDELERI AKSNR

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Macromolecule #8: 40S ribosomal protein S6

MacromoleculeName: 40S ribosomal protein S6 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 24.583883 KDa
SequenceString: MRITLAYPEN GTQVVVDIDD PAALNALYEK RVGQDIEGEK LGGQFKGYLF RIGGGFDKQG FPMKQGVITP RRIRLLLKTG ASCYRPRKD GERKRKTVRG CIISDEISAL HCVVLQKGEK EIDGLTTTVV PRRFGPKRAS TLRAMFGITD SKFDASKLVL K REVKPGKF ...String:
MRITLAYPEN GTQVVVDIDD PAALNALYEK RVGQDIEGEK LGGQFKGYLF RIGGGFDKQG FPMKQGVITP RRIRLLLKTG ASCYRPRKD GERKRKTVRG CIISDEISAL HCVVLQKGEK EIDGLTTTVV PRRFGPKRAS TLRAMFGITD SKFDASKLVL K REVKPGKF TSPKVQRLIT ARRVARKNRM LKERKEKREA TKKKAEQYQA LLKQQQKQ

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Macromolecule #9: 40S ribosomal protein S7, putative

MacromoleculeName: 40S ribosomal protein S7, putative / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 18.708568 KDa
SequenceString:
MSETVTAAFN EIAAGKPELK DLKIESVKEV KSEGATVLVI TVPYKQIKAF QSAQATFLPD LEKKLNAQIC IIGKHRAFPK TPEHGRRFK AIRNYGRTLR SVNDAILDDL VFPTAIVGKR VHYDVNGKQV TRVILDKHDA TRVEERLSGF AAAYNRLTGI V SVFEVAQN

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Macromolecule #10: 40S ribosomal protein S8

MacromoleculeName: 40S ribosomal protein S8 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 22.118488 KDa
SequenceString: MGITRMGDLK HTKSGARQVA WRKKRNFLAG RPSAQTRIGE KRIHAVRVRG GNLKMRALRL ETGTFAWASE NCTRKTRILN VTYHPADND LVRTNTLARG SVVSIDAAPF KQWYERQFGK ALGKSQYVKP EKVTDKMTQR WAANKDGGVV APELVAEFDQ G RLLAVITS ...String:
MGITRMGDLK HTKSGARQVA WRKKRNFLAG RPSAQTRIGE KRIHAVRVRG GNLKMRALRL ETGTFAWASE NCTRKTRILN VTYHPADND LVRTNTLARG SVVSIDAAPF KQWYERQFGK ALGKSQYVKP EKVTDKMTQR WAANKDGGVV APELVAEFDQ G RLLAVITS RPGQCGRADG YILEGEELAF YSDKIAKKK

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Macromolecule #11: Uncharacterized protein

MacromoleculeName: Uncharacterized protein / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 21.811295 KDa
SequenceString:
MSSRNFSRTF KKPMRPYEKE RMHKELQVVG EYGLKNKREI WRVSYTLSKI RHAARELLTL PENDSKRIFE GAALLRRLTK LGVLDESKQ KLDYVLSLTV NDLMDRRLQT QVHKRALANS VHHARTLVSH RHISVENQLV NQPAFLVWKE SEKNIKYADT S VMTTEKLG RKKRMRAHAQ TKKADEE

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Macromolecule #12: Plectin/S10 domain containing protein

MacromoleculeName: Plectin/S10 domain containing protein / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 16.251438 KDa
SequenceString:
MYMPTAIRRR ILRCLFENGV LCVSDIQSGT HEELDCLNIY PYQIGRAFVT KGFCIKTYAW SHAYYTLTDK GIEYLRNYFG LPANAAPAT LREAEAKVLE TRRDRPQGRG PRRFGNGPRG DRPQRGGFRG PRREQAEQPQ QE

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Macromolecule #13: Uncharacterized protein

MacromoleculeName: Uncharacterized protein / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 18.015252 KDa
SequenceString:
MSTVQTERAF QKQPQLFLAS KKHANAEKKQ RYVKSIGLKI ETPKTAEERE YIDAKCPFTG TVSIRGRVLR GVVVSTKMRR TIIIRRDYL QWIRKYKRFE KRHTKIPAHI SPAFLVKEGD LVTVAECRPL SKTVHFNVIH VKPAAVGADK RQFRVF

+
Macromolecule #14: Ribosomal protein L7Ae, putative

MacromoleculeName: Ribosomal protein L7Ae, putative / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 13.714954 KDa
SequenceString:
METVIEHGLH QINLSGNVAK GIRCTIKAIL KGKARLVLLA DDCENKDYKN LVAGLCKKHN VKLQAVEKKE LLGRALGLTH FKADGSVRR QMNCGACAII RYGSVDTQEL DEFRKAFDPA VEEQA

+
Macromolecule #15: 40S ribosomal protein S13, putative

MacromoleculeName: 40S ribosomal protein S13, putative / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 17.071031 KDa
SequenceString:
MGRLHSQGKG ISSSTCPYRR SAPHWLQLSA ENCVQMICDY AKKGVRPSQI GALLRDRNGV GMVRAVTGVK VLRILKANGL APALPEELY HLIKKATNVR KHLEHAKHDV DGKYRLILIE SRIHRLTRYY KTRRVLAPNW KYNAQTASAL VA

+
Macromolecule #16: Ribosomal protein S14

MacromoleculeName: Ribosomal protein S14 / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 16.689012 KDa
SequenceString:
MSAPEAAPAA PADQTATTGK KDVQLGPVKR DGEIVMGVAH IYASKNDTFV HVTDLSGSET LARCTGGIAV RAQRDEATPY AAMLAAQAV AARLKELGVD GVHIKFRGEG GSSRRLPAQG AQSALRALAR AGVKIGRIED VTPLPHDSTR RKGGRRGRRL

+
Macromolecule #17: Ribosomal protein S19, putative

MacromoleculeName: Ribosomal protein S19, putative / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 16.28608 KDa
SequenceString:
MSASGKFAQR NYTYRGKTLD DLRAMELKDF VELLPTKRRR FISRSFDLKH VHLIEKLKKA RQAVEGQAGV RPPVVKTHLR HMVILPEFV DNVIGIYDGH VFFEVQIKPE MIGHVLADFA PSKKVVKHSK AGVGATRSSS ATSLK

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Macromolecule #18: 40S ribosomal protein S16, putative

MacromoleculeName: 40S ribosomal protein S16, putative / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 15.626175 KDa
SequenceString:
MKSVQVFGRK KTATAVAYCC EGSGLIKLNG TPINMVSSET LRAKILEPLQ LIGEESWGNL DIRVRVHGGG HVAQVYAIRQ AVAKAIVAY YQKYVDEATK TEIKNTLLGY DRTLLVADPR RMEPKKFGGQ GARVRRQMSY R

+
Macromolecule #19: 40S ribosomal protein S17-B, putative

MacromoleculeName: 40S ribosomal protein S17-B, putative / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 14.964434 KDa
SequenceString:
MGRIRTKTTK RAARLVIERF YGQLSFDFQD NKRVCDAVAD IPSKRMRNKI AGYVTHLMRR LERGPVRGIS FKLQEQEREK RDNWMPTTS KLNVPKILVD PETKEMLAAI GLGEMEGVEV FTRRAGARQQ

+
Macromolecule #20: Ribosomal protein S13p/S18e, putative

MacromoleculeName: Ribosomal protein S13p/S18e, putative / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 17.564523 KDa
SequenceString:
MPIEVTDPAA FRDMVRMLST NVDGRRPLYL ALTNISGIGR RFAYAVVRRA GLDPLRRAGT LTPKEEELIV SIIQNPTEHQ IPVWMLNRR FDRATGQNTH WVATDLGANI RAEIERMKKM RMKRGIRHGL GLKVRGQCTK STGRRGGALG VERKKD

+
Macromolecule #21: Ribosomal protein S19e, putative

MacromoleculeName: Ribosomal protein S19e, putative / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 16.584188 KDa
SequenceString:
MIGGKTGHKG FQAREISADV FVNALAKHFQ ENRIVKPPEW ADLVKTAALK QMAPSNQNWF YTRAAAVIRQ IYMHHDASLS GLSFHYGAN LKAVTMPKHH HNASRKVIRS ILQQLEKSDL VKVGEKGRQL TPKGQRLLDQ VATSCGKKQ

+
Macromolecule #22: Ribosomal protein S10p/S20e, putative

MacromoleculeName: Ribosomal protein S10p/S20e, putative / type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 13.933201 KDa
SequenceString:
MADHVVPTGD EKKEIIEDLP VQKIRLTITS SKLPNLQRVV GNLMGKLKKG NLEVRGPIPM PRRRLRITTR RAPCGNGTET YDHFELRIY KRVIDFQGTA EAVKQVTQIA LEPDVHVEVS VITE

+
Macromolecule #23: 40S ribosomal protein S21

MacromoleculeName: 40S ribosomal protein S21 / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 9.85313 KDa
SequenceString:
MQNDAGEIVD MLIPRKCMAT DRLIPPHDHA SVQIQIAKVN DDGLPTGEFE TVVFSGYVRA LGESDYALNR IATEKGLLTG VYRNEAHKQ

+
Macromolecule #24: Ribosomal protein S15a

MacromoleculeName: Ribosomal protein S15a / type: protein_or_peptide / ID: 24 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 14.583213 KDa
SequenceString:
MVRTSVLADA LKAITNAERR GMRQVLIRPS SKVIIAFLKV MASRNYIGDF EVIDDHRSGK IVINLLGRLN KCVAICPRFD VGLGDLEMW QAKLLPSRQF GYVVLSTDKG IMDHEEARKH NAGGKILGMF F

+
Macromolecule #25: 40S ribosomal protein S23, putative

MacromoleculeName: 40S ribosomal protein S23, putative / type: protein_or_peptide / ID: 25 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 15.592457 KDa
SequenceString:
MGKSKACGRL AARKLRLAHK SNLWASNAYR RSLGTSIYKT PLEGTSMASG IVVGKVAVEA KQPNSAIRKA VRVQLKKNSK VVTAFVPRD GSLRLIDDND RVLIAGMGRS GRSVGDLPGC RFKVIKVAGF SLLALWLGKK EKPRS

+
Macromolecule #26: Ribosomal protein S24e, putative

MacromoleculeName: Ribosomal protein S24e, putative / type: protein_or_peptide / ID: 26 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 16.069884 KDa
SequenceString:
MSKVSVHIRK YIVNKLLDRK QFVIDMQHLG AKAPTRDEIK DEVASRLKAN KDLVVIFGLE TKFGGGHTTG FGFVYDSLDA LKKTEPKHR LIKAGLAEKG KVTRRMRKNA RRQKVKVWGS GKRAEAHKIR RQQRKEELGS H

+
Macromolecule #27: Uncharacterized protein

MacromoleculeName: Uncharacterized protein / type: protein_or_peptide / ID: 27 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 12.645859 KDa
SequenceString:
MSAKGGARKK WTKATNKEKR EWAVIITPEQ AADMVKSVPK NKVISAGKLA ERYKISLTCA RKALEALTAE GKIVPVINGH DLKCYGPHP DHVVEKVEEV KEETKKPAGK KGGKKQ

+
Macromolecule #28: 40S ribosomal protein S26

MacromoleculeName: 40S ribosomal protein S26 / type: protein_or_peptide / ID: 28 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 13.889256 KDa
SequenceString:
MPVKRRNHGR SKMNRGHTRT VNCMNCGRQV PKDKAITRFA IKNMVDASSA KDVSDACIYQ GYELPKTYQK QYYCVSCAVH RHVVRPRNV NVRRNRVPLF LKLRLEKLEQ RNAQRLSKE

+
Macromolecule #29: 40S ribosomal protein S27

MacromoleculeName: 40S ribosomal protein S27 / type: protein_or_peptide / ID: 29 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 9.467907 KDa
SequenceString:
MTTLDVDILH PSVEQELHTN KKKTLVPNPR SEFLSLRCPS CTGLTTAFSH SNVPVFCKNC QTPLATPTGG RILLADQVEI RPRVNA

+
Macromolecule #30: Uncharacterized protein

MacromoleculeName: Uncharacterized protein / type: protein_or_peptide / ID: 30 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 7.650717 KDa
SequenceString:
MESTQEQVKL AVVKQVIGRT GSRGGVTQVR VEFLDDSNRS LVRNVKGAVR EGDILSLLET EREARRLR

+
Macromolecule #31: 40S ribosomal protein S29, putative

MacromoleculeName: 40S ribosomal protein S29, putative / type: protein_or_peptide / ID: 31 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 6.8431 KDa
SequenceString:
MPVDFVPKHP RDNAKGSVER SCRICGKRRG VIRQYRLNIC RRCFRERAEL LGFKKYD

+
Macromolecule #32: 40S ribosomal protein S30

MacromoleculeName: 40S ribosomal protein S30 / type: protein_or_peptide / ID: 32 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 6.919079 KDa
SequenceString:
MGKVHGSLAQ AGKVRSNTPK VAKMDKPKEV RGRARLRKIY NQRFLAVNPD AKRKTGPNSQ SQ

+
Macromolecule #33: Guanine nucleotide-binding protein beta subunit, putative

MacromoleculeName: Guanine nucleotide-binding protein beta subunit, putative
type: protein_or_peptide / ID: 33 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 37.151832 KDa
SequenceString: MSAEQPVEQV EQVEVEETQS AHFAPRATFV GHNAAIESIE IDNEHNYLVS ASRDKSALVW KLNRTQEQWA TPFTRLIGHN HFVSDVSLS RDASHLLTSS WDSTLRLWDL STRTTKKLFL GHKKDVLGVT FSPCNRRIIS VGRDNQVKIW NILGENKAEL Q CSSWVTSV ...String:
MSAEQPVEQV EQVEVEETQS AHFAPRATFV GHNAAIESIE IDNEHNYLVS ASRDKSALVW KLNRTQEQWA TPFTRLIGHN HFVSDVSLS RDASHLLTSS WDSTLRLWDL STRTTKKLFL GHKKDVLGVT FSPCNRRIIS VGRDNQVKIW NILGENKAEL Q CSSWVTSV ACAPMADETS PLVIAVGCWD GKVYIWSIEK EAKLIKEFKA HDGRCTSVDF TPDGKWVITG GSDRKVVMWL TE NGAKTIS FTAPSPVHAV AACPTQAWIC AATYEGIAVW DIGAKQQIDL VQPNFKHEGK RNAGRTPDCT CLAWAADGSV LYS GYNDGS IRAWEVKSA

+
Macromolecule #34: eL41

MacromoleculeName: eL41 / type: protein_or_peptide / ID: 34 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Molecular weightTheoretical: 3.354243 KDa
SequenceString:
MRAKWRKKRT RRLKRKRRKV RARSK

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.4
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 2.0 e/Å2
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

-
Image processing

Initial angle assignmentType: PROJECTION MATCHING
Final angle assignmentType: ANGULAR RECONSTITUTION
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.35 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 57162
FSC plot (resolution estimation)

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