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- PDB-5xy3: Large subunit of Trichomonas vaginalis ribosome -

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Entry
Database: PDB / ID: 5xy3
TitleLarge subunit of Trichomonas vaginalis ribosome
Components
  • (60S ribosomal protein ...) x 11
  • (Ribosomal protein ...) x 23
  • (Ribosomal protein, ...) x 2
  • (Uncharacterized ...) x 3
  • 25S ribosomal RNA
  • 5.8S ribosomal RNA
  • 5S ribosomal RNA
  • Ubiquitin, putative
KeywordsRIBOSOME / Trichomonas vaginalis ribosome / rRNA / rprotein
Function / homology
Function and homology information


maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / ribosomal large subunit biogenesis / maturation of LSU-rRNA / assembly of large subunit precursor of preribosome / modification-dependent protein catabolic process / cytoplasmic translation / large ribosomal subunit rRNA binding / protein tag / ribosome biogenesis / ribosomal large subunit assembly ...maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / ribosomal large subunit biogenesis / maturation of LSU-rRNA / assembly of large subunit precursor of preribosome / modification-dependent protein catabolic process / cytoplasmic translation / large ribosomal subunit rRNA binding / protein tag / ribosome biogenesis / ribosomal large subunit assembly / cytosolic large ribosomal subunit / 5S rRNA binding / negative regulation of translation / ribosome / rRNA binding / structural constituent of ribosome / protein ubiquitination / translation / mRNA binding / ubiquitin protein ligase binding / RNA binding / metal ion binding / nucleus / cytoplasm
Ribosomal L37ae protein family / Ribosomal protein L22e superfamily / Ribosomal protein L14 superfamily / Ribosomal protein L13 superfamily / Ribosomal protein L30, ferredoxin-like fold domain superfamily / Ribosomal protein L10e/L16 superfamily / Ribosomal protein L21 superfamily / Ribosomal protein L36e domain superfamily / Ribosomal protein L38e superfamily / Ribosomal protein L7A/L8 superfamily ...Ribosomal L37ae protein family / Ribosomal protein L22e superfamily / Ribosomal protein L14 superfamily / Ribosomal protein L13 superfamily / Ribosomal protein L30, ferredoxin-like fold domain superfamily / Ribosomal protein L10e/L16 superfamily / Ribosomal protein L21 superfamily / Ribosomal protein L36e domain superfamily / Ribosomal protein L38e superfamily / Ribosomal protein L7A/L8 superfamily / Ribosomal protein L34Ae superfamily / Ribosomal protein L22/L17 superfamily / Ribosomal protein L40e superfamily / Ribosomal protein L24e/L24 superfamily / Ribosomal protein L27e superfamily / Ribosomal protein L35A superfamily / Ribosomal protein L30/YlxQ / 60S ribosomal protein L19 / Ribosomal protein L14 / Ribosomal protein L7/L30 / Ribosomal protein L6, alpha-beta domain superfamily / Ribosomal protein L32e superfamily / Ribosomal Protein L26/L24, KOW domain / 60S ribosomal protein L4, C-terminal domain / Ribosomal protein L30e, conserved site / Ribosomal protein L30, central domain, archaeal type / Ribosomal protein 50S-L18Ae/60S-L20/60S-L18A / Ribosomal protein L4 domain superfamily / Ribosomal protein L31e domain superfamily / Ribosomal protein L39e domain superfamily / Ribosomal protein L15e core domain superfamily / Ribosomal protein L5 eukaryotic/L18 archaeal, C-terminal / 50S ribosomal protein L18Ae/60S ribosomal protein L20 and L18a / Ribosomal protein L29/L35 superfamily / 50S ribosomal protein L30e-like / Ubiquitin-like domain superfamily / Ribosomal protein L15 / Ribosomal protein L5, C-terminal / Ribosomal protein L5, N-terminal / Ribosomal protein L19, eukaryotic / Ribosomal protein L7, eukaryotic/archaeal / Ribosomal protein L19/L19e superfamily / Ribosomal protein L14, KOW motif / Eukaryotic Ribosomal Protein L27, KOW domain / Ribosomal protein L2, C-terminal / Ribosomal protein L35Ae / Ribosomal protein L24e / Ribosomal protein L23 / Ribosomal proteins L26 eukaryotic, L24P archaeal / Ribosomal L27e protein family / Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A / Ribosomal L29e protein family / Ribosomal protein L31e / Ribosomal protein L32 / Ribosomal protein L34e / Ribosomal L22e protein family / Ribosomal L29 protein / Ribosomal protein L36e / Ribosomal protein L37e / Ribosomal L38e protein family / Ribosomal L39 protein / Ubiquitin family / Ribosomal L40e family / Ribosomal protein L44 / Ribosomal protein L14p/L23e / Ribosomal protein L21e / Ribosomal Proteins L2, RNA binding domain / Ribosomal protein L7Ae/L30e/S12e/Gadd45 family / Ribosomal Proteins L2, C-terminal domain / Ribosomal protein L3 / Ribosomal protein L4/L1 family / 60S ribosomal protein L4 C-terminal domain / Ribosomal L18 C-terminal region / Ribosomal large subunit proteins 60S L5, and 50S L18 / Ribosomal protein L30p/L7e / Ribosomal L30 N-terminal domain / Ribosomal protein L16p/L10e / Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A / Ribosomal protein L5 / ribosomal L5P family C-terminus / Ribosomal protein L13e / Ribosomal protein L14 / Ribosomal L15 / Ribosomal protein L13 / Ribosomal protein L22p/L17e / Ribosomal protein 60S L18 and 50S L18e / Ribosomal protein L19e / Ribosomal protein L5 domain superfamily / Ribosomal L18e/L15P superfamily / Ribosomal Proteins L2, RNA binding domain / Ribosomal protein L19/L19e / Ribosomal protein L37ae / Ribosomal protein L32e / Ribosomal protein L22e / Ribosomal protein L2 / Ribosomal protein L4/L1e / Ribosomal protein L5 / Ribosomal protein L40e / Ribosomal protein L7A/L8 / Ribosomal protein L29/L35
Ribosomal_L18e/L15P domain-containing protein / Ubiquitin, putative / Uncharacterized protein / Ribosomal protein L24e, putative / Ribosomal protein L6, putative / Ribosomal protein L7Ae, putative / Uncharacterized protein / 60S ribosomal protein L44, putative / Ribosomal protein L31e, putative / 60S ribosomal protein L39, putative ...Ribosomal_L18e/L15P domain-containing protein / Ubiquitin, putative / Uncharacterized protein / Ribosomal protein L24e, putative / Ribosomal protein L6, putative / Ribosomal protein L7Ae, putative / Uncharacterized protein / 60S ribosomal protein L44, putative / Ribosomal protein L31e, putative / 60S ribosomal protein L39, putative / 60S ribosomal protein L29 / 60S ribosomal protein L19-3, putative / 60S ribosomal protein L18, putative / Ribosomal protein L24, putative / Ribosomal protein L22, putative / Ribosomal protein L36e, putative / gb:461415: / Ribosomal protein L32, putative / Ribosomal protein L21e, putative / Ribosomal protein L30p/L7e, putative / Ribosomal protein L37 / Ribosomal protein L38e, putative / Ribosomal protein, putative / Ribosomal protein L34e, putative / 60S ribosomal protein L6, putative / Ribosomal protein L13e, putative / gb:7243609: / gb:68235680: / 60S ribosomal protein L18a / Ribosomal protein L27e, putative / Ribosomal protein L15 / 60S ribosomal protein L11, putative / 60S ribosomal protein L30, putative / Ribosomal protein L8, putative / Ribosomal protein L29, putative / Ribosomal protein, putative / Ribosomal protein L14, putative / Ribosomal protein L13, putative / Ribosomal protein L35Ae, putative / 60S ribosomal protein L23, putative / 60S ribosomal protein L22-1, putative / Ribosomal protein L5 / Ribosomal protein L23, putative
Biological speciesTrichomonas vaginalis (eukaryote)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.2 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.
Validation Report
SummaryFull reportAbout validation report
History
DepositionJul 6, 2017Deposition site: PDBJ / Processing site: PDBJ
Revision 1.0Aug 30, 2017Provider: repository / Type: Initial release
Revision 1.1Sep 6, 2017Group: Structure summary / Category: entity / Item: _entity.pdbx_description
Revision 1.2Oct 18, 2017Group: Database references / Category: citation
Item: _citation.journal_volume / _citation.page_first / _citation.page_last
Revision 1.3Dec 18, 2019Group: Advisory / Derived calculations / Category: pdbx_validate_close_contact / struct_conn

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Structure visualization

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Assembly

Deposited unit
1: 25S ribosomal RNA
3: 5S ribosomal RNA
4: 5.8S ribosomal RNA
A: Ribosomal protein L8, putative
B: Uncharacterized protein
C: Ribosomal protein, putative
D: Ribosomal protein L5
E: 60S ribosomal protein L6, putative
F: Ribosomal protein L30p/L7e, putative
G: Ribosomal protein L7Ae, putative
H: Ribosomal protein L6, putative
I: Ribosomal protein, putative
J: 60S ribosomal protein L11, putative
L: Ribosomal protein L13e, putative
M: Ribosomal protein L14, putative
N: Ribosomal protein L15
O: Ribosomal protein L13, putative
P: Ribosomal protein L22, putative
Q: 60S ribosomal protein L18, putative
R: 60S ribosomal protein L19-3, putative
S: 60S ribosomal protein L18a
T: Ribosomal protein L21e, putative
U: 60S ribosomal protein L22-1, putative
V: 60S ribosomal protein L23, putative
W: Ribosomal protein L24e, putative
X: Ribosomal protein L23, putative
Y: Ribosomal protein L24, putative
Z: Ribosomal protein L27e, putative
a: Uncharacterized protein
b: 60S ribosomal protein L29
c: 60S ribosomal protein L30, putative
d: Ribosomal protein L31e, putative
e: Ribosomal protein L32, putative
f: Ribosomal protein L35Ae, putative
g: Ribosomal protein L34e, putative
h: Ribosomal protein L29, putative
i: Ribosomal protein L36e, putative
j: Ribosomal protein L37
k: Ribosomal protein L38e, putative
l: 60S ribosomal protein L39, putative
m: Ubiquitin, putative
o: 60S ribosomal protein L44, putative
p: Uncharacterized protein


Theoretical massNumber of molelcules
Total (without water)1,713,54043
Polymers1,713,54043
Non-polymers00
Water0
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: microscopy
TypeNameSymmetry operationNumber
identity operation1_5551
Buried area308510 Å2
ΔGint-2751 kcal/mol
Surface area556640 Å2

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Components

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RNA chain , 3 types, 3 molecules 134

#1: RNA chain 25S ribosomal RNA /


Mass: 892223.312 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: GenBank: 7243609
#2: RNA chain 5S ribosomal RNA /


Mass: 37963.594 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: GenBank: 68235680
#3: RNA chain 5.8S ribosomal RNA /


Mass: 52173.945 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: GenBank: 461415

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Ribosomal protein ... , 23 types, 23 molecules ADFGHLMNOPTWXYZdefghijk

#4: Protein Ribosomal protein L8, putative / Ribosome / uL2


Mass: 26949.082 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2E6Z8
#7: Protein Ribosomal protein L5 / 60S ribosomal protein L5 / uL18


Mass: 34932.766 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DNM5
#9: Protein Ribosomal protein L30p/L7e, putative / Ribosome / uL30


Mass: 26842.281 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2F592
#10: Protein Ribosomal protein L7Ae, putative / Ribosome / eL8


Mass: 27602.273 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2ET60
#11: Protein Ribosomal protein L6, putative / Ribosome / uL6


Mass: 22930.506 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DDT1
#14: Protein Ribosomal protein L13e, putative / Ribosome / eL13


Mass: 21865.705 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2G4E1
#15: Protein Ribosomal protein L14, putative / Ribosome / eL14


Mass: 14726.112 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DZ49
#16: Protein Ribosomal protein L15 / / eL15


Mass: 24323.465 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2ECR7
#17: Protein Ribosomal protein L13, putative / Ribosome / uL13


Mass: 22569.111 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DZ26
#18: Protein Ribosomal protein L22, putative / Ribosome / uL22


Mass: 18530.490 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DM53
#22: Protein Ribosomal protein L21e, putative / Ribosome / eL21


Mass: 17910.867 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2F2S5
#25: Protein Ribosomal protein L24e, putative / Ribosome / eL24


Mass: 13282.475 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DJQ1
#26: Protein Ribosomal protein L23, putative / Ribosome / uL23


Mass: 15582.249 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DUV8
#27: Protein Ribosomal protein L24, putative / Ribosome / uL24


Mass: 15782.617 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DKF2
#28: Protein Ribosomal protein L27e, putative / Ribosome / eL27


Mass: 15946.061 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DNC1
#32: Protein Ribosomal protein L31e, putative / Ribosome / eL31


Mass: 12446.528 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2D9N8
#33: Protein Ribosomal protein L32, putative / Ribosome / eL32


Mass: 15249.669 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2F2J0
#34: Protein Ribosomal protein L35Ae, putative / Ribosome / eL33


Mass: 11668.678 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DSF3
#35: Protein Ribosomal protein L34e, putative / Ribosome / eL34


Mass: 13346.646 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2FWA1
#36: Protein Ribosomal protein L29, putative / Ribosome / uL29


Mass: 14300.049 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2E6R2
#37: Protein Ribosomal protein L36e, putative / Ribosome / eL36


Mass: 10941.717 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2EXW7
#38: Protein Ribosomal protein L37 / / eL37


Mass: 9355.945 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2F8Y8
#39: Protein Ribosomal protein L38e, putative / Ribosome / eL38


Mass: 8468.960 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2FFH9

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Uncharacterized ... , 3 types, 3 molecules Bap

#5: Protein Uncharacterized protein / uL3


Mass: 46904.270 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DD62
#29: Protein Uncharacterized protein / uL15


Mass: 17006.787 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DHU7
#43: Protein Uncharacterized protein / eL43


Mass: 10051.994 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DEM7

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Ribosomal protein, ... , 2 types, 2 molecules CI

#6: Protein Ribosomal protein, putative / Ribosome / uL4


Mass: 40320.738 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2E4D0
#12: Protein Ribosomal protein, putative / Ribosome / uL16


Mass: 23800.781 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2FVZ6

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60S ribosomal protein ... , 11 types, 11 molecules EJQRSUVbclo

#8: Protein 60S ribosomal protein L6, putative / Ribosome / eL6


Mass: 16045.772 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2FXW1
#13: Protein 60S ribosomal protein L11, putative / Ribosome / uL5


Mass: 19373.488 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2E7L8
#19: Protein 60S ribosomal protein L18, putative / Ribosome / eL18


Mass: 21122.545 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2D7Q5
#20: Protein 60S ribosomal protein L19-3, putative / Ribosome / eL19


Mass: 21056.785 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2D8G1
#21: Protein 60S ribosomal protein L18a / / eL20


Mass: 19853.973 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2EP03
#23: Protein 60S ribosomal protein L22-1, putative / Ribosome / eL22


Mass: 12237.054 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DNV5
#24: Protein 60S ribosomal protein L23, putative / Ribosome / uL14


Mass: 14840.554 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DP51
#30: Protein 60S ribosomal protein L29 / / eL29


Mass: 6823.724 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DM33
#31: Protein 60S ribosomal protein L30, putative / Ribosome / eL30


Mass: 12316.229 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2E6Z9
#40: Protein 60S ribosomal protein L39, putative / Ribosome / eL39


Mass: 6297.775 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2D9N4
#42: Protein 60S ribosomal protein L44, putative / Ribosome / eL41


Mass: 12471.015 Da / Num. of mol.: 1 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DAI6

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Protein , 1 types, 1 molecules m

#41: Protein Ubiquitin, putative / / eL40


Mass: 15101.515 Da / Num. of mol.: 1 / Fragment: UNP residues 35-166 / Source method: isolated from a natural source / Source: (natural) Trichomonas vaginalis (eukaryote) / References: UniProt: A2DGL5

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

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Sample preparation

ComponentName: Large subunit of Trichomonas vaginalis ribosome / Type: RIBOSOME
Entity ID: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43
Source: NATURAL
Source (natural)Organism: Trichomonas vaginalis (eukaryote)
Buffer solutionpH: 7.4
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELDBright-field microscopy
Image recordingElectron dose: 2 e/Å2 / Film or detector model: GATAN K2 SUMMIT (4k x 4k)

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Processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
3D reconstructionResolution: 3.2 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 57162 / Symmetry type: POINT

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