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- EMDB-4242: Human cap-dependent 48S pre-initiation complex -

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Entry
Database: EMDB / ID: 4242
TitleHuman cap-dependent 48S pre-initiation complex
Map datahuman 48S pre-initiation complex, reconstituted in the presence of capped mRNA, eIF4B and eIF4F, displaying eIF2 ternary complex, eIF3 and eIF4B
Samplehuman cap-dependent 48S translation pre-initiation complex
Function/homologymale germ cell proliferation / translation initiation ternary complex / Eukaryotic translation initiation factor 4B / Eukaryotic translation initiation factor 3 subunit D / glial limiting end-foot / Eukaryotic translation initiation factor 3 subunit 7 (eIF-3) / eukaryotic translation initiation factor 4F complex assembly / Eukaryotic translation initiation factor 3 subunit F / Eukaryotic translation initiation factor 3 subunit H / RNA strand-exchange activity ...male germ cell proliferation / translation initiation ternary complex / Eukaryotic translation initiation factor 4B / Eukaryotic translation initiation factor 3 subunit D / glial limiting end-foot / Eukaryotic translation initiation factor 3 subunit 7 (eIF-3) / eukaryotic translation initiation factor 4F complex assembly / Eukaryotic translation initiation factor 3 subunit F / Eukaryotic translation initiation factor 3 subunit H / RNA strand-exchange activity / Eukaryotic translation initiation factor 3 subunit M / Eukaryotic translation initiation factor 3 subunit E / Eukaryotic translation initiation factor 3 subunit E, N-terminal / Translation initiation factor 3 complex subunit L / Translation initiation factor 3, subunit 12, N-terminal, eukaryotic / Eukaryotic translation initiation factor 3 subunit K / eukaryotic translation initiation factor 3 complex, eIF3e / RNA polymerase I-associated factor PAF67 / eIF3 subunit 6 N terminal domain / Recycling of eIF2:GDP / Eukaryotic translation initiation factor 3 subunit C / Eukaryotic translation initiation factor 3 subunit C, N-terminal domain / Eukaryotic translation initiation factor 3 subunit A / Eukaryotic translation initiation factor 3 subunit 8 N-terminus / response to manganese-induced endoplasmic reticulum stress / viral translational termination-reinitiation / eukaryotic translation initiation factor 2 complex / Eukaryotic translation initiation factor 3 subunit B / eukaryotic translation initiation factor 3 complex, eIF3m / eIF3B, RNA recognition motif / cytoplasmic translational initiation / negative regulation of translational initiation in response to stress / cap-dependent translational initiation / Translation initiation factor, beta propellor-like domain / translation reinitiation / positive regulation of transferase activity / positive regulation of respiratory burst involved in inflammatory response / Eukaryotic translation initiation factor eIF2A / mammalian oogenesis stage / Translation initiation factor 2, alpha subunit / nucleolus organization / Translation initiation factor 2, alpha subunit, C-terminal / Translation initiation factor 2, alpha subunit, middle domain superfamily / Translation initiation factor IF2/IF5, zinc-binding / Translation initiation factor IF2/IF5, N-terminal / Translation initiation factor IF2/IF5 / positive regulation of cAMP catabolic process / PERK regulates gene expression / protein tyrosine kinase inhibitor activity / positive regulation of type B pancreatic cell apoptotic process / mRNA cap binding / positive regulation of gastrulation / response to extracellular stimulus / positive regulation of Golgi to plasma membrane protein transport / formation of cytoplasmic translation initiation complex / multi-eIF complex / cytoplasmic side of rough endoplasmic reticulum membrane / positive regulation of mRNA binding / 40S ribosomal protein SA / Eukaryotic translation initiation factor 2 alpha subunit / laminin receptor activity / 40S ribosomal protein SA, C-terminal domain / eukaryotic 48S preinitiation complex / Domain found in IF2B/IF5 / IRE1-RACK1-PP2A complex / signaling adaptor activity / rRNA modification in the nucleus and cytosol / IRES-dependent viral translational initiation / negative regulation of ubiquitin protein ligase activity / Activation of the mRNA upon binding of the cap-binding complex and eIFs, and subsequent binding to 43S / formation of translation preinitiation complex / eukaryotic translation initiation factor 3 complex / T cell proliferation involved in immune response / Translation initiation factor 2, gamma subunit, C-terminal / TNFR1-mediated ceramide production / activation-induced cell death of T cells / 40S ribosomal protein SA C-terminus / positive regulation of base-excision repair / response to TNF agonist / oxidized pyrimidine DNA binding / positive regulation of DNA N-glycosylase activity / negative regulation of DNA repair / positive regulation of cysteine-type endopeptidase activity involved in execution phase of apoptosis / regulation of cell division / Formation of the ternary complex, and subsequently, the 43S complex / positive regulation of intrinsic apoptotic signaling pathway in response to DNA damage / positive regulation of ceramide biosynthetic process / PERK-mediated unfolded protein response / negative regulation of RNA splicing / translation regulator activity / negative regulation of endoplasmic reticulum unfolded protein response / rescue of stalled ribosome / translation factor activity, RNA binding / eukaryotic translation initiation factor 4F complex / NF-kappaB complex / 90S preribosome / ubiquitin ligase inhibitor activity / negative regulation of guanyl-nucleotide exchange factor activity / RNA strand annealing activity / negative regulation of hydrogen peroxide-induced neuron death
Function and homology information
SourceHomo sapiens / human /
Methodsingle particle reconstruction, at 6.3 Å resolution
AuthorsSchaffitzel C / Schaffitzel C
CitationJournal: Nucleic Acids Res. / Year: 2018
Title: Structure of a human cap-dependent 48S translation pre-initiation complex.
Authors: Boris Eliseev / Lahari Yeramala / Alexander Leitner / Manikandan Karuppasamy / Etienne Raimondeau / Karine Huard / Elena Alkalaeva / Ruedi Aebersold / Christiane Schaffitzel
Abstract: Eukaryotic translation initiation is tightly regulated, requiring a set of conserved initiation factors (eIFs). Translation of a capped mRNA depends on the trimeric eIF4F complex and eIF4B to load ...Eukaryotic translation initiation is tightly regulated, requiring a set of conserved initiation factors (eIFs). Translation of a capped mRNA depends on the trimeric eIF4F complex and eIF4B to load the mRNA onto the 43S pre-initiation complex comprising 40S and initiation factors 1, 1A, 2, 3 and 5 as well as initiator-tRNA. Binding of the mRNA is followed by mRNA scanning in the 48S pre-initiation complex, until a start codon is recognised. Here, we use a reconstituted system to prepare human 48S complexes assembled on capped mRNA in the presence of eIF4B and eIF4F. The highly purified h-48S complexes are used for cross-linking/mass spectrometry, revealing the protein interaction network in this complex. We report the electron cryo-microscopy structure of the h-48S complex at 6.3 Å resolution. While the majority of eIF4B and eIF4F appear to be flexible with respect to the ribosome, additional density is detected at the entrance of the 40S mRNA channel which we attribute to the RNA-recognition motif of eIF4B. The eight core subunits of eIF3 are bound at the 40S solvent-exposed side, as well as the subunits eIF3d, eIF3b and eIF3i. elF2 and initiator-tRNA bound to the start codon are present at the 40S intersubunit side. This cryo-EM structure represents a molecular snap-shot revealing the h-48S complex following start codon recognition.
Validation ReportPDB-ID: 6fec

SummaryFull reportAbout validation report
DateDeposition: Dec 31, 2017 / Header (metadata) release: Mar 14, 2018 / Map release: Mar 14, 2018 / Last update: Apr 4, 2018

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.08
  • Imaged by UCSF CHIMERA
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  • Surface view colored by height
  • Surface level: 0.08
  • Imaged by UCSF CHIMERA
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  • Surface view with fitted model
  • Atomic models: : PDB-6fec
  • Surface level: 0.08
  • Imaged by UCSF CHIMERA
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3D viewer
Supplemental images

Downloads & links

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Map

Fileemd_4242.map.gz (map file in CCP4 format, 35996 KB)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
208 pix
2.5 Å/pix.
= 520. Å
208 pix
2.5 Å/pix.
= 520. Å
208 pix
2.5 Å/pix.
= 520. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider package.

Voxel sizeX=Y=Z: 2.5 Å
Density
Contour Level:0.05 (by author), 0.08 (movie #1):
Minimum - Maximum-0.32222414 - 0.5438056
Average (Standard dev.)-0.000108246015 (0.027071523)
Details

EMDB XML:

Space Group Number1
Map Geometry
Axis orderXYZ
Dimensions208208208
Origin000
Limit207207207
Spacing208208208
CellA=B=C: 520.0 Å
α=β=γ: 90.0 deg.

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z2.52.52.5
M x/y/z208208208
origin x/y/z0.0000.0000.000
length x/y/z520.000520.000520.000
α/β/γ90.00090.00090.000
start NX/NY/NZ
NX/NY/NZ
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS208208208
D min/max/mean-0.3220.544-0.000

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Supplemental data

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Sample components

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Entire human cap-dependent 48S translation pre-initiation complex

EntireName: human cap-dependent 48S translation pre-initiation complex
Number of components: 55
MassTheoretical: 2.0 MDa

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Component #1: protein, human cap-dependent 48S translation pre-initiation complex

ProteinName: human cap-dependent 48S translation pre-initiation complex
Recombinant expression: No
MassTheoretical: 2.0 MDa

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Component #2: protein, human cap-dependent 48S translation pre-initiation complex

ProteinName: human cap-dependent 48S translation pre-initiation complex
Recombinant expression: No
SourceSpecies: Homo sapiens / human /

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Component #3: protein, mRNA

ProteinName: mRNA / Recombinant expression: No
SourceSpecies: Homo sapiens / human /
Source (engineered)Expression System: Escherichia coli / bacteria / /

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Component #4: protein, Eukaryotic translation initiation factor 4B

ProteinName: Eukaryotic translation initiation factor 4B / Recombinant expression: No
SourceSpecies: Homo sapiens / human /
Source (engineered)Expression System: Spodoptera frugiperda / arthropod / Fall armyworm

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Component #5: protein, Eukaryotic translation initiation factor 3 subunit A

ProteinName: Eukaryotic translation initiation factor 3 subunit A / Recombinant expression: No
MassTheoretical: 164.902656 kDa
SourceSpecies: Homo sapiens / human /

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Component #6: protein, Eukaryotic translation initiation factor 3 subunit C

ProteinName: Eukaryotic translation initiation factor 3 subunit C / Recombinant expression: No
MassTheoretical: 97.923547 kDa
SourceSpecies: Homo sapiens / human /

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Component #7: protein, Eukaryotic translation initiation factor 3 subunit E

ProteinName: Eukaryotic translation initiation factor 3 subunit E / Recombinant expression: No
MassTheoretical: 52.281633 kDa
SourceSpecies: Homo sapiens / human /

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Component #8: protein, Eukaryotic translation initiation factor 3 subunit F

ProteinName: Eukaryotic translation initiation factor 3 subunit F / Recombinant expression: No
MassTheoretical: 37.84673 kDa
SourceSpecies: Homo sapiens / human /

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Component #9: protein, Eukaryotic translation initiation factor 3 subunit H

ProteinName: Eukaryotic translation initiation factor 3 subunit H / Recombinant expression: No
MassTheoretical: 39.952281 kDa
SourceSpecies: Homo sapiens / human /

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Component #10: protein, Eukaryotic translation initiation factor 3 subunit K

ProteinName: Eukaryotic translation initiation factor 3 subunit K / Recombinant expression: No
MassTheoretical: 25.129709 kDa
SourceSpecies: Homo sapiens / human /

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Component #11: protein, Eukaryotic translation initiation factor 3 subunit L

ProteinName: Eukaryotic translation initiation factor 3 subunit L / Recombinant expression: No
MassTheoretical: 66.804766 kDa
SourceSpecies: Homo sapiens / human /

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Component #12: protein, Eukaryotic translation initiation factor 3 subunit M

ProteinName: Eukaryotic translation initiation factor 3 subunit M / Recombinant expression: No
MassTheoretical: 42.555832 kDa
SourceSpecies: Homo sapiens / human /

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Component #13: protein, EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT D

ProteinName: EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT D / Recombinant expression: No
MassTheoretical: 42.203555 kDa
SourceSpecies: Homo sapiens / human /

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Component #14: nucleic-acid, 18S ribosomal RNA

Nucleic-acidName: 18S ribosomal RNA / Class: RNA / Structure: OTHER / Synthetic: No
Sequence:
UACCUGGUUG AUCCUGCCAG UAGCAUAUGC UUGUCUCAAA GAUUAAGCCA UGCAUGUCUA AGUACGCACG GCCGGUACAG UGAAACUGCG AAUGGCUCAU UAAAUCAGUU AUGGUUCCUU UGGUCGCUCG CUCCUCUCCU ACUUGGAUAA CUGUGGUAAU UCUAGAGCUA AUACAUGCCG ACGGCGCUGA CUCCCUUUGU GUGGGAUGCG UGCAUUUAUC AGAUCAAAAC CAACCCGGUC AGCGGCGGCG GCUUUGGUGA CUCUAGAUAA CCUCGGGCCG AUCGCAGCCC UCCGUGGCGG CGACGACCCA UUCGAACGUC UGCCCUAUCA ACUUUCGAUG GUAGUCGCCG UGCCUACCAU GGUGACCACG GGUGACGGGG AAUCAGGGUU CGAUUCCGGA GAGGGAGCCU GAGAAACGGC UACCACAUCC AAGGAAGGCA GCAGGCGCGC AAAUUACCCA CUCCCGACCC GGGGAGGUAG UGACGAAAAA UAACAAUACA GGACUCUUUC GAGGCCCUGU AAUUGGAAUG AGUCCACUUU AAAUCCUUUA ACGAGGAUCC AUUGGAGGGC AAGUCUGGUC GCAGCAGCCG CGGUAAUUCC AGCUCCAAUA GCGUAUAUUA AAGUUGCUGC AGUUAAAAAG CUCGUAGUUG GAUCUUGAGG GCCCGCCCCU CGGCGCCCCC UCGAUGUGUC CCGCGGGGCC CGAAGCGUUU ACUUUGAAAA AAUUAGAGUG UUCAAAGCAG GCCCGAGCCG CCUGGAUACC GCAGCUAGGA AUAAUGGAAU AGGACCGCGG UUCUAUUUUG UUGGUUUUCG GAACUGAGGC CAUGAUUAAG AGGGACGGCC GGGGGCAUUC GUAUUGCGCC GCUAGAGGUG AAAUUCUUGG ACCGGCGCAA GACGGACCAG AGCGAAAGCA UUUGCCAAGA AUGUUUUCAU UAAUCAAGAA CGAAAGUCGG AGGUUCGAAG ACGAUCAGAU ACCGUCGUAG UUCCGACCAU AAACGAUGCC GACUGGCGAU GCGGCGGCGU UAUUCCCAUG ACCCGCCGGG CAGCUUCCGG GAAACCAAAG UCUUUGGGUU CCGGGGGGAG UAUGGUUGCA AAGCUGAAAC UUAAAGGAAU UGACGGAAGG GCACCACCAG GAGUGGAGCC UGCGGCUUAA UUUGACUCAA CACGGGAAAC CUCACCCGGC CCGGACACGG ACAGGAUUGA CAGAUUGAUA GCUCUUUCUC GAUUCUGUGG GUGGUGGUGC AUGGCCGUUC UUAGUUGGUG GAGCGAUUUG UCUGGUUAAU UCCGAUAACG AACGAGACUC UGGCAUGCUA ACUAGUUACG CGACCCCCGA GCGGUCGGCG UCCCCCAACU UCUUAGAGGG ACAAGUGGCG UUCAGCCACC CGAGAUUGAG CAAUAACAGG UCUGUGAUGC CCUUAGAUGU CGGGGCUGCA CGCGCGCUAC ACUGACUGGC UCAGCGUGUG CCUACCCUAC GCCGGCAGGC GCGGGUAACC CGUUGAACCC CAUUCGUGAU GGGGAUCGGG GAUUGCAAUU AUUCCCCAUG AACGAGGAAU UCCCAGUAAG UGCGGGUCAU AAGCUUGCGU UGAUUAAGUC CCUGCCCUUU GUACACACCG CCCGUCGCUA CUACCGAUUG GAUGGUUUAG UGAGGCCCUC GGAUCGGCCC GCCGGGGUCG GCCCACGGCC CUGGCGGAGC GCUGAGAAGA CGGUCGAACU UGACUAUCUA GAGGAAGUAA AAGUCGUAAC AAGGUUUCCG UAGGUGAACC UGCGGAAGGA UCAUUA
MassTheoretical: 572.789812 kDa
SourceSpecies: Homo sapiens / human /

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Component #15: nucleic-acid, Messenger RNA (26-MER)

Nucleic-acidName: Messenger RNA (26-MER) / Class: RNA / Structure: OTHER / Synthetic: No
Sequence:
CAGACACCAU GGUGCACCUG ACUCCU
MassTheoretical: 8.238953 kDa

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Component #16: protein, 40S ribosomal protein S11

ProteinName: 40S ribosomal protein S11 / Recombinant expression: No
MassTheoretical: 18.468826 kDa
SourceSpecies: Homo sapiens / human /

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Component #17: protein, 40S ribosomal protein S16

ProteinName: 40S ribosomal protein S16 / Recombinant expression: No
MassTheoretical: 15.975753 kDa
SourceSpecies: Homo sapiens / human /

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Component #18: protein, 40S ribosomal protein S4, X isoform

ProteinName: 40S ribosomal protein S4, X isoform / Recombinant expression: No
MassTheoretical: 29.65892 kDa
SourceSpecies: Homo sapiens / human /

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Component #19: protein, 40S ribosomal protein S29

ProteinName: 40S ribosomal protein S29 / Recombinant expression: No
MassTheoretical: 6.364426 kDa
SourceSpecies: Homo sapiens / human /

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Component #20: protein, 40S ribosomal protein S9

ProteinName: 40S ribosomal protein S9 / Recombinant expression: No
MassTheoretical: 21.266166 kDa
SourceSpecies: Homo sapiens / human /

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Component #21: protein, 40S ribosomal protein S18

ProteinName: 40S ribosomal protein S18 / Recombinant expression: No
MassTheoretical: 16.170774 kDa
SourceSpecies: Homo sapiens / human /

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Component #22: nucleic-acid, Transfer RNA (75-MER)

Nucleic-acidName: Transfer RNA (75-MER) / Class: RNA / Structure: OTHER / Synthetic: No
Sequence:
AGCAGAGUGG CGCAGCGGAA GCGUGCUGGG CCCAUAACCC AGAGGUCGAU GGAUCGAAAC CAUCCUCUGC UACCA
MassTheoretical: 24.23151 kDa
SourceSpecies: Homo sapiens / human /

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Component #23: protein, Eukaryotic translation initiation factor 2 subunit 1

ProteinName: Eukaryotic translation initiation factor 2 subunit 1 / Recombinant expression: No
MassTheoretical: 30.633297 kDa
SourceSpecies: Homo sapiens / human /

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Component #24: protein, 40S ribosomal protein S23

ProteinName: 40S ribosomal protein S23 / Recombinant expression: No
MassTheoretical: 15.757587 kDa
SourceSpecies: Homo sapiens / human /

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Component #25: protein, 40S ribosomal protein S19

ProteinName: 40S ribosomal protein S19 / Recombinant expression: No
MassTheoretical: 15.812286 kDa
SourceSpecies: Homo sapiens / human /

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Component #26: protein, Eukaryotic translation initiation factor 2 subunit 3

ProteinName: Eukaryotic translation initiation factor 2 subunit 3 / Recombinant expression: No
MassTheoretical: 45.862441 kDa
SourceSpecies: Homo sapiens / human /

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Component #27: protein, 40S ribosomal protein S5

ProteinName: 40S ribosomal protein S5 / Recombinant expression: No
MassTheoretical: 21.525941 kDa
SourceSpecies: Homo sapiens / human /

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Component #28: protein, 40S ribosomal protein S30

ProteinName: 40S ribosomal protein S30 / Recombinant expression: No
MassTheoretical: 6.741048 kDa
SourceSpecies: Homo sapiens / human /

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Component #29: protein, 40S ribosomal protein S25

ProteinName: 40S ribosomal protein S25 / Recombinant expression: No
MassTheoretical: 8.526119 kDa
SourceSpecies: Homo sapiens / human /

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Component #30: protein, 40S ribosomal protein S7

ProteinName: 40S ribosomal protein S7 / Recombinant expression: No
MassTheoretical: 21.716387 kDa
SourceSpecies: Homo sapiens / human /

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Component #31: protein, 40S ribosomal protein S27

ProteinName: 40S ribosomal protein S27 / Recombinant expression: No
MassTheoretical: 9.480186 kDa
SourceSpecies: Homo sapiens / human /

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Component #32: protein, 40S ribosomal protein S13

ProteinName: 40S ribosomal protein S13 / Recombinant expression: No
MassTheoretical: 17.128191 kDa
SourceSpecies: Homo sapiens / human /

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Component #33: protein, 40S ribosomal protein S15a

ProteinName: 40S ribosomal protein S15a / Recombinant expression: No
MassTheoretical: 14.734357 kDa
SourceSpecies: Homo sapiens / human /

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Component #34: protein, 40S ribosomal protein S21

ProteinName: 40S ribosomal protein S21 / Recombinant expression: No
MassTheoretical: 8.896102 kDa
SourceSpecies: Homo sapiens / human /

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Component #35: protein, 40S ribosomal protein S2

ProteinName: 40S ribosomal protein S2 / Recombinant expression: No
MassTheoretical: 24.814285 kDa
SourceSpecies: Homo sapiens / human /

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Component #36: protein, EUKARYOTIC TRANSLATION INITIATION FACTOR 2 BETA SUBUNIT ...

ProteinName: EUKARYOTIC TRANSLATION INITIATION FACTOR 2 BETA SUBUNIT (eIF2-Beta)
Recombinant expression: No
MassTheoretical: 2.103416 kDa
SourceSpecies: Homo sapiens / human /

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Component #37: protein, 40S ribosomal protein S17

ProteinName: 40S ribosomal protein S17 / Recombinant expression: No
MassTheoretical: 14.578988 kDa
SourceSpecies: Homo sapiens / human /

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Component #38: protein, 40S ribosomal protein SA

ProteinName: 40S ribosomal protein SA / Recombinant expression: No
MassTheoretical: 23.360791 kDa
SourceSpecies: Homo sapiens / human /

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Component #39: protein, 40S ribosomal protein S3

ProteinName: 40S ribosomal protein S3 / Recombinant expression: No
MassTheoretical: 25.158535 kDa
SourceSpecies: Homo sapiens / human /

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Component #40: protein, 40S ribosomal protein S20

ProteinName: 40S ribosomal protein S20 / Recombinant expression: No
MassTheoretical: 11.76589 kDa
SourceSpecies: Homo sapiens / human /

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Component #41: protein, 40S ribosomal protein S3a

ProteinName: 40S ribosomal protein S3a / Recombinant expression: No
MassTheoretical: 24.944408 kDa
SourceSpecies: Homo sapiens / human /

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Component #42: protein, 40S ribosomal protein S14

ProteinName: 40S ribosomal protein S14 / Recombinant expression: No
MassTheoretical: 14.544659 kDa
SourceSpecies: Homo sapiens / human /

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Component #43: protein, 40S ribosomal protein S26

ProteinName: 40S ribosomal protein S26 / Recombinant expression: No
MassTheoretical: 11.315428 kDa
SourceSpecies: Homo sapiens / human /

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Component #44: protein, 40S ribosomal protein S28

ProteinName: 40S ribosomal protein S28 / Recombinant expression: No
MassTheoretical: 7.263394 kDa
SourceSpecies: Homo sapiens / human /

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Component #45: protein, Receptor of activated protein C kinase 1

ProteinName: Receptor of activated protein C kinase 1 / Recombinant expression: No
MassTheoretical: 34.669113 kDa
SourceSpecies: Homo sapiens / human /

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Component #46: protein, 40S ribosomal protein S15

ProteinName: 40S ribosomal protein S15 / Recombinant expression: No
MassTheoretical: 15.151948 kDa
SourceSpecies: Homo sapiens / human /

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Component #47: protein, 40S ribosomal protein S8

ProteinName: 40S ribosomal protein S8 / Recombinant expression: No
MassTheoretical: 23.902871 kDa
SourceSpecies: Homo sapiens / human /

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Component #48: protein, Ubiquitin-40S ribosomal protein S27a

ProteinName: Ubiquitin-40S ribosomal protein S27a / Recombinant expression: No
MassTheoretical: 8.358903 kDa
SourceSpecies: Homo sapiens / human /

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Component #49: protein, 40S ribosomal protein S6

ProteinName: 40S ribosomal protein S6 / Recombinant expression: No
MassTheoretical: 27.471535 kDa
SourceSpecies: Homo sapiens / human /

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Component #50: protein, 40S ribosomal protein S12

ProteinName: 40S ribosomal protein S12 / Recombinant expression: No
MassTheoretical: 13.766122 kDa
SourceSpecies: Homo sapiens / human /

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Component #51: protein, 40S ribosomal protein S24

ProteinName: 40S ribosomal protein S24 / Recombinant expression: No
MassTheoretical: 15.18897 kDa
SourceSpecies: Homo sapiens / human /

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Component #52: protein, 40S ribosomal protein S10

ProteinName: 40S ribosomal protein S10 / Recombinant expression: No
MassTheoretical: 11.773953 kDa
SourceSpecies: Homo sapiens / human /

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Component #53: protein, Eukaryotic translation initiation factor 4B

ProteinName: Eukaryotic translation initiation factor 4B / Recombinant expression: No
MassTheoretical: 72.32482 kDa
Source (engineered)Expression System: Homo sapiens / human / / Vector: pFastBac_eIF4B

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Component #54: protein, Eukaryotic translation initiation factor 3 subunit B

ProteinName: Eukaryotic translation initiation factor 3 subunit B / Recombinant expression: No
MassTheoretical: 124.402336 kDa
SourceSpecies: Homo sapiens / human /

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Component #55: ligand, water

LigandName: water / Number of Copies: 415 / Recombinant expression: No
MassTheoretical: 1.801505 MDa

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Experimental details

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Sample preparation

Specimen stateparticle
Sample solutionBuffer solution: 20 mM Tris HCl, 50 mM KOAc, 2.5 mM MgCl2, 2 mM DTT, 0.25 mM spermidine 0.25 mM GMPPNP
pH: 7.5
VitrificationInstrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Temperature: 277 K / Humidity: 1 %

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
ImagingMicroscope: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 3 e/Å2 / Illumination mode: FLOOD BEAM
LensMagnification: 112000 X (nominal) / Imaging mode: BRIGHT FIELD / Defocus: 1500.0 - 4000.0 nm
Specimen HolderModel: FEI TITAN KRIOS AUTOGRID HOLDER
CameraDetector: FEI FALCON II (4k x 4k)

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Image processing

ProcessingMethod: single particle reconstruction / Applied symmetry: C1 (asymmetric) / Number of projections: 50604
3D reconstructionAlgorithm: BACK PROJECTION / Software: RELION / Resolution: 6.3 Å / Resolution method: FSC 0.143 CUT-OFF

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Atomic model buiding

Output model

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