EMDB-4793: State 2 of yeast Tsr1-TAP Rps20-Deltaloop pre-40S particles

Basic information

• Entry: Database: EMDB / ID: EMD-4793
• Title: State 2 of yeast Tsr1-TAP Rps20-Deltaloop pre-40S particles
• Map data: Yeast pre-40S particle, purified using Tsr1-TAP as bait, in mutant conditions (deletion of aa 68-78 of Rps20) Structural class 2 Final EM map; local sharpening with LocScale

Sample

• Complex: C2-S20DeltaLoop State 2 of yeast pre-40S particles purified with Tsr1-TAP as bait, in mutant conditions (deletion of aa 68-78 of Rps20)
  • RNA: x 1 types
  • Protein or peptide: x 32 types

• Keywords: pre-40S / yeast / cytoplasmic / mutant Rps20 / RIBOSOME

Function / homology

Function:

positive regulation of RNA import into nucleus / 18S rRNA (adenine1779-N6/adenine1780-N6)-dimethyltransferase / 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase activity / rRNA modification / rRNA (adenine-N6,N6-)-dimethyltransferase activity / endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, LSU-rRNA,5S) / negative regulation of glucose mediated signaling pathway / negative regulation of translational frameshifting / Negative regulators of DDX58/IFIH1 signaling / rRNA primary transcript binding / RMTs methylate histone arginines / positive regulation of translational fidelity / Protein methylation / mTORC1-mediated signalling / Protein hydroxylation / ribosome-associated ubiquitin-dependent protein catabolic process / rRNA methylation / U3 snoRNA binding / GDP-dissociation inhibitor activity / nonfunctional rRNA decay / positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay / poly(A)+ mRNA export from nucleus / Formation of the ternary complex, and subsequently, the 43S complex / Translation initiation complex formation / preribosome, small subunit precursor / Ribosomal scanning and start codon recognition / snoRNA binding / Major pathway of rRNA processing in the nucleolus and cytosol / mRNA destabilization / SRP-dependent cotranslational protein targeting to membrane / GTP hydrolysis and joining of the 60S ribosomal subunit / Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / Formation of a pool of free 40S subunits / regulation of amino acid metabolic process / L13a-mediated translational silencing of Ceruloplasmin expression / proteasome assembly / 90S preribosome / G-protein alpha-subunit binding / positive regulation of protein kinase activity / endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / regulation of translational fidelity / Ub-specific processing proteases / ribonucleoprotein complex binding / ribosomal subunit export from nucleus / ribosomal small subunit export from nucleus / translation regulator activity / 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) / DNA-(apurinic or apyrimidinic site) endonuclease activity / cellular response to amino acid starvation / rescue of stalled ribosome / ribosome assembly / maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) / maturation of SSU-rRNA / small-subunit processome / translational initiation / protein kinase C binding / maintenance of translational fidelity / modification-dependent protein catabolic process / cytoplasmic stress granule / protein tag activity / rRNA processing / ribosomal small subunit biogenesis / unfolded protein binding / small ribosomal subunit rRNA binding / ribosome biogenesis / ribosome binding / ribosomal small subunit assembly / small ribosomal subunit / cytosolic small ribosomal subunit / cytoplasmic translation / negative regulation of translation / non-specific serine/threonine protein kinase / protein kinase activity / rRNA binding / ribosome / protein ubiquitination / structural constituent of ribosome / positive regulation of protein phosphorylation / G protein-coupled receptor signaling pathway / translation / negative regulation of gene expression / protein serine kinase activity / protein serine/threonine kinase activity / GTPase activity / mRNA binding / ubiquitin protein ligase binding / GTP binding / nucleolus / mitochondrion / RNA binding / zinc ion binding / nucleoplasm / ATP binding / nucleus / metal ion binding / cytosol / cytoplasm

Domain/homology:

Serine/threonine-protein kinase Rio2 / RIO2 kinase winged helix domain, N-terminal / Rio2, N-terminal / Tsr1, G-like domain / RIO kinase / RIO-like kinase / RIO1 family / Krr1, KH1 domain / Krr1 KH1 domain / Bystin / Bystin / Ribosomal RNA adenine dimethylase / Ribosomal RNA adenine methylase transferase, conserved site / Ribosomal RNA adenine methylase transferase, N-terminal / Ribosomal RNA adenine dimethylases signature. / Ribosomal RNA adenine dimethylases / Eukaryotic type KH-domain (KH-domain type I) (327.11.2) / Ribosomal RNA adenine methyltransferase KsgA/Erm / Ribosomal RNA adenine dimethylase / rRNA adenine N(6)-methyltransferase family profile. / Ribosome biogenesis protein BMS1/TSR1, C-terminal / AARP2CN / Bms1/Tsr1-type G domain / Ribosome biogenesis protein Bms1/Tsr1 / 40S ribosome biogenesis protein Tsr1 and BMS1 C-terminal / AARP2CN (NUC121) domain / Bms1-type guanine nucleotide-binding (G) domain profile. / AARP2CN (NUC121) domain / Protein of unknown function (DUF663) / K Homology domain, type 1 superfamily / Ribosomal protein S21e, conserved site / Ribosomal protein S21e signature. / : / Ribosomal protein S12e signature. / Ribosomal protein S12e / Ribosomal protein S5, eukaryotic/archaeal / Ribosomal protein S19e, conserved site / Ribosomal protein S19e signature. / Ribosomal protein S21e / Ribosomal protein S21e superfamily / Ribosomal protein S21e / Ribosomal protein S2, eukaryotic / Small (40S) ribosomal subunit Asc1/RACK1 / S27a-like superfamily / 40S Ribosomal protein S10 / Ribosomal protein S10, eukaryotic/archaeal / Plectin/S10, N-terminal / Plectin/S10 domain / Ribosomal protein S25 / S25 ribosomal protein / Ribosomal protein S27a / Ribosomal protein S27a / Ribosomal protein S27a / Ribosomal protein S2, eukaryotic/archaeal / Ribosomal protein S8e subdomain, eukaryotes / Ribosomal protein S17e, conserved site / Ribosomal protein S17e signature. / Ribosomal protein S30 / : / Ribosomal protein S30 / 40S ribosomal protein S29/30S ribosomal protein S14 type Z / Ribosomal protein S7e signature. / Ribosomal protein S3, eukaryotic/archaeal / Ribosomal protein S19e / Ribosomal protein S3Ae, conserved site / Ribosomal protein S19e / Ribosomal protein S3Ae signature. / Ribosomal_S19e / Ribosomal protein S27e signature. / Ribosomal protein S4e, N-terminal, conserved site / Ribosomal protein S4e signature. / 40S ribosomal protein S4, C-terminal domain / 40S ribosomal protein S4 C-terminus / Ribosomal protein S8e, conserved site / Ribosomal protein S8e signature. / Ribosomal protein S19A/S15e / Ribosomal protein S17e / Ribosomal protein S17e-like superfamily / Ribosomal S17 / : / Ribosomal protein S6, eukaryotic / Ribosomal S24e conserved site / Ribosomal protein S24e signature. / 40S ribosomal protein S1/3, eukaryotes / Ribosomal protein S4e, N-terminal / RS4NT (NUC023) domain / 40S ribosomal protein S11, N-terminal / Ribosomal_S17 N-terminal / Ribosomal protein S7e / Ribosomal protein S7e / Ribosomal protein S4, KOW domain / Ribosomal protein S4e / Ribosomal protein S4e, central region / Ribosomal protein S4e, central domain superfamily / Ribosomal family S4e / Ribosomal protein S6/S6e/A/B/2, conserved site / Ribosomal protein S6e signature. / Ribosomal protein S23, eukaryotic/archaeal / Ribosomal protein S24e / Ribosomal protein S24e

Component:

Small ribosomal subunit protein uS4A / Small ribosomal subunit protein eS17A / Small ribosomal subunit protein uS3 / Small ribosomal subunit protein uS15 / Ubiquitin-ribosomal protein eS31 fusion protein / Small ribosomal subunit protein uS11A / Small ribosomal subunit protein eS19A / Small ribosomal subunit protein eS21A / Small ribosomal subunit protein uS8A / Small ribosomal subunit protein uS12A / Small ribosomal subunit protein eS24A / Small ribosomal subunit protein eS30A / Small ribosomal subunit protein eS4A / Small ribosomal subunit protein eS6A / Small ribosomal subunit protein eS8A / Small ribosomal subunit protein uS17A / Small ribosomal subunit protein uS9A / Small ribosomal subunit protein uS13A / Small ribosomal subunit protein uS5 / Small ribosomal subunit protein uS7 / Small ribosomal subunit protein eS7A / Small ribosomal subunit protein uS2A / Small ribosomal subunit protein eS1A / Small ribosomal subunit protein eS27A / Small ribosomal subunit protein RACK1 / Essential nuclear protein 1 / Small ribosomal subunit protein uS10 / Serine/threonine-protein kinase RIO2 / Small ribosomal subunit protein uS14A / Dimethyladenosine transferase / Small ribosomal subunit protein eS12 / Small ribosomal subunit protein uS19 / Ribosome biogenesis protein TSR1 / Small ribosomal subunit protein eS10A / Small ribosomal subunit protein eS25A / Small ribosomal subunit protein eS28A / Pre-rRNA-processing protein PNO1

• Biological species: Saccharomyces cerevisiae S288c (yeast) / Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Method: single particle reconstruction / cryo EM / Resolution: 3.8 Å
• Authors: Shayan R / Mitterer V

Funding support

France, 1 items

Organization	Grant number	Country
French National Research Agency	RIBOMAN	France

• Citation: Journal: Nat Commun / Year: 2019; Title: Conformational proofreading of distant 40S ribosomal subunit maturation events by a long-range communication mechanism.; Authors: Valentin Mitterer / Ramtin Shayan / Sébastien Ferreira-Cerca / Guillaume Murat / Tanja Enne / Dana Rinaldi / Sarah Weigl / Hajrija Omanic / Pierre-Emmanuel Gleizes / Dieter Kressler / Celia Plisson-Chastang / Brigitte Pertschy / ; Abstract: Eukaryotic ribosomes are synthesized in a hierarchical process driven by a plethora of assembly factors, but how maturation events at physically distant sites on pre-ribosomes are coordinated is poorly understood. Using functional analyses and cryo-EM, we show that ribosomal protein Rps20 orchestrates communication between two multi-step maturation events across the pre-40S subunit. Our study reveals that during pre-40S maturation, formation of essential contacts between Rps20 and Rps3 permits assembly factor Ltv1 to recruit the Hrr25 kinase, thereby promoting Ltv1 phosphorylation. In parallel, a deeply buried Rps20 loop reaches to the opposite pre-40S side, where it stimulates Rio2 ATPase activity. Both cascades converge to the final maturation steps releasing Rio2 and phosphorylated Ltv1. We propose that conformational proofreading exerted via Rps20 constitutes a checkpoint permitting assembly factor release and progression of pre-40S maturation only after completion of all earlier maturation steps.

History

Deposition	Apr 10, 2019	-
Header (metadata) release	May 1, 2019	-
Map release	Jun 26, 2019	-
Update	May 22, 2024	-
Current status	May 22, 2024	Processing site: PDBe / Status: Released

Map

• File: Download / File: emd_4793.map.gz / Format: CCP4 / Size: 216 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
• Annotation: Yeast pre-40S particle, purified using Tsr1-TAP as bait, in mutant conditions (deletion of aa 68-78 of Rps20) Structural class 2 Final EM map; local sharpening with LocScale
• Voxel size: X=Y=Z: 1.067 Å

Density

Contour Level	By AUTHOR: 0.095 / Movie #1: 0.095
Minimum - Maximum	-0.22846869 - 0.5547447
Average (Standard dev.)	0.002889833 (±0.019886581)

• Symmetry: Space group: 1

Details

EMDB XML:

Map geometry	Axis order X Y Z Origin 0 0 0 Dimensions 384 384 384 Spacing 384 384 384
Cell	A=B=C: 409.72803 Å α=β=γ: 90.0 °

CCP4 map header:

mode	Image stored as Reals
Å/pix. X/Y/Z	1.067	1.067	1.067
M x/y/z	384	384	384
origin x/y/z	0.000	0.000	0.000
length x/y/z	409.728	409.728	409.728
α/β/γ	90.000	90.000	90.000
MAP C/R/S	1	2	3
start NC/NR/NS	0	0	0
NC/NR/NS	384	384	384
D min/max/mean	-0.228	0.555	0.003

Supplemental data

Half map: Yeast pre-40S particle, purified using Tsr1-TAP as bait,...

• File: emd_4793_half_map_1.map
• Annotation: Yeast pre-40S particle, purified using Tsr1-TAP as bait, in mutant conditions (deletion of aa 68-78 of Rps20) Structural class 2 Unfiltered half map 1

Half map: Yeast pre-40S particle, purified using Tsr1-TAP as bait,...

• File: emd_4793_half_map_2.map
• Annotation: Yeast pre-40S particle, purified using Tsr1-TAP as bait, in mutant conditions (deletion of aa 68-78 of Rps20) Structural class 2 Unfiltered half map 2

Sample components

Entire : C2-S20DeltaLoop State 2 of yeast pre-40S particles purified with ...

• Entire: Name: C2-S20DeltaLoop State 2 of yeast pre-40S particles purified with Tsr1-TAP as bait, in mutant conditions (deletion of aa 68-78 of Rps20)

Components

• Complex: C2-S20DeltaLoop State 2 of yeast pre-40S particles purified with Tsr1-TAP as bait, in mutant conditions (deletion of aa 68-78 of Rps20)
  • RNA: 18S ribosomal RNA
  • Protein or peptide: 40S ribosomal protein S0-A
  • Protein or peptide: 40S ribosomal protein S1-A
  • Protein or peptide: 40S ribosomal protein S2
  • Protein or peptide: 40S ribosomal protein S4-A
  • Protein or peptide: 40S ribosomal protein S6-A
  • Protein or peptide: 40S ribosomal protein S7-A
  • Protein or peptide: 40S ribosomal protein S8-A
  • Protein or peptide: 40S ribosomal protein S9-A
  • Protein or peptide: 40S ribosomal protein S11-A
  • Protein or peptide: 40S ribosomal protein S13
  • Protein or peptide: 40S ribosomal protein S14-A
  • Protein or peptide: 40S ribosomal protein S17-A
  • Protein or peptide: 40S ribosomal protein S21-A
  • Protein or peptide: 40S ribosomal protein S22-A
  • Protein or peptide: 40S ribosomal protein S23-A
  • Protein or peptide: 40S ribosomal protein S24-A
  • Protein or peptide: 40S ribosomal protein S27-A
  • Protein or peptide: 40S ribosomal protein S29-A
  • Protein or peptide: 40S ribosomal protein S30-A
  • Protein or peptide: 40S ribosomal protein S3
  • Protein or peptide: 40S ribosomal protein S5
  • Protein or peptide: 40S ribosomal protein S10-A
  • Protein or peptide: 40S ribosomal protein S12
  • Protein or peptide: 40S ribosomal protein S15
  • Protein or peptide: 40S ribosomal protein S16-A
  • Protein or peptide: 40S ribosomal protein S18-A
  • Protein or peptide: 40S ribosomal protein S19-A
  • Protein or peptide: 40S ribosomal protein S20
  • Protein or peptide: 40S ribosomal protein S25-A
  • Protein or peptide: 40S ribosomal protein S28-A
  • Protein or peptide: Ubiquitin-40S ribosomal protein S31
  • Protein or peptide: Guanine nucleotide-binding protein subunit beta-like protein

Supramolecule #1: C2-S20DeltaLoop State 2 of yeast pre-40S particles purified with ...

• Supramolecule: Name: C2-S20DeltaLoop State 2 of yeast pre-40S particles purified with Tsr1-TAP as bait, in mutant conditions (deletion of aa 68-78 of Rps20); type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
• Source (natural): Organism: Saccharomyces cerevisiae S288c (yeast)
• Molecular weight: Theoretical: 1.2 MDa

Macromolecule #1: 18S ribosomal RNA

• Macromolecule: Name: 18S ribosomal RNA / type: rna / ID: 1 / Number of copies: 1
• Source (natural): Organism: Saccharomyces cerevisiae S288c (yeast)
• Molecular weight: Theoretical: 579.761938 KDa

Sequence

String:

UAUCUGGUUG AUCCUGCCAG UAGUCAUAUG CUUGUCUCAA AGAUUAAGCC AUGCAUGUCU AAGUAUAAGC AAUUUAUACA GUGAAACUG CGAAUGGCUC AUUAAAUCAG UUAUCGUUUA UUUGAUAGUU CCUUUACUAC AUGGUAUAAC UGUGGUAAUU C UAGAGCUA AUACAUGCUU AAAAUCUCGA CCCUUUGGAA GAGAUGUAUU UAUUAGAUAA AAAAUCAAUG UCUUCGGACU CU UUGAUGA UUCAUAAUAA CUUUUCGAAU CGCAUGGCCU UGUGCUGGCG AUGGUUCAUU CAAAUUUCUG CCCUAUCAAC UUU CGAUGG UAGGAUAGUG GCCUACCAUG GUUUCAACGG GUAACGGGGA AUAAGGGUUC GAUUCCGGAG AGGGAGCCUG AGAA ACGGC UACCACAUCC AAGGAAGGCA GCAGGCGCGC AAAUUACCCA AUCCUAAUUC AGGGAGGUAG UGACAAUAAA UAACG AUAC AGGGCCCAUU CGGGUCUUGU AAUUGGAAUG AGUACAAUGU AAAUACCUUA ACGAGGAACA AUUGGAGGGC AAGUCU GGU GCCAGCAGCC GCGGUAAUUC CAGCUCCAAU AGCGUAUAUU AAAGUUGUUG CAGUUAAAAA GCUCGUAGUU GAACUUU GG GCCCGGUUGG CCGGUCCGAU UUUUUCGUGU ACUGGAUUUC CAACGGGGCC UUUCCUUCUG GCUAACCUUG AGUCCUUG U GGCUCUUGGC GAACCAGGAC UUUUACUUUG AAAAAAUUAG AGUGUUCAAA GCAGGCGUAU UGCUCGAAUA UAUUAGCAU GGAAUAAUAG AAUAGGACGU UUGGUUCUAU UUUGUUGGUU UCUAGGACCA UCGUAAUGAU UAAUAGGGAC GGUCGGGGGC AUCAGUAUU CAAUUGUCAG AGGUGAAAUU CUUGGAUUUA UUGAAGACUA ACUACUGCGA AAGCAUUUGC CAAGGACGUU U UCAUUAAU CAAGAACGAA AGUUAGGGGA UCGAAGAUGA UCAGAUACCG UCGUAGUCUU AACCAUAAAC UAUGCCGACU AG GGAUCGG GUGGUGUUUU UUUAAUGACC CACUCGGCAC CUUACGAGAA AUCAAAGUCU UUGGGUUCUG GGGGGAGUAU GGU CGCAAG GCUGAAACUU AAAGGAAUUG ACGGAAGGGC ACCACCAGGA GUGGAGCCUG CGGCUUAAUU UGACUCAACA CGGG GAAAC UCACCAGGUC CAGACACAAU AAGGAUUGAC AGAUUGAGAG CUCUUUCUUG AUUUUGUGGG UGGUGGUGCA UGGCC GUUC UUAGUUGGUG GAGUGAUUUG UCUGCUUAAU UGCGAUAACG AACGAGACCU UAACCUACUA AAUAGUGGUG CUAGCA UUU GCUGGUUAUC CACUUCUUAG AGGGACUAUC GGUUUCAAGC CGAUGGAAGU UUGAGGCAAU AACAGGUCUG UGAUGCC CU UAGACGUUCU GGGCCGCACG CGCGCUACAC UGACGGAGCC AGCGAGUCUA ACCUUGGCCG AGAGGUCUUG GUAAUCUU G UGAAACUCCG UCGUGCUGGG GAUAGAGCAU UGUAAUUAUU GCUCUUCAAC GAGGAAUUCC UAGUAAGCGC AAGUCAUCA GCUUGCGUUG AUUACGUCCC UGCCCUUUGU ACACACCGCC CGUCGCUAGU ACCGAUUGAA UGGCUUAGUG AGGCCUCAGG AUCUGCUUA GAGAAGGGGG CAACUCCAUC UCAGAGCGGA GAAUUUGGAC AAACUUGGUC AUUUAGAGGA ACUAAAAGUC G UAACAAGG UUUCCGUAGG UGAACCUGCG GAAGGAUCAU UA

GENBANK: GENBANK: U53879.1

Macromolecule #2: 40S ribosomal protein S0-A

• Macromolecule: Name: 40S ribosomal protein S0-A / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 28.05133 KDa

Sequence

String:

MSLPATFDLT PEDAQLLLAA NTHLGARNVQ VHQEPYVFNA RPDGVHVINV GKTWEKLVLA ARIIAAIPNP EDVVAISSRT FGQRAVLKF AAHTGATPIA GRFTPGSFTN YITRSFKEPR LVIVTDPRSD AQAIKEASYV NIPVIALTDL DSPSEFVDVA I PCNNRGKH SIGLIWYLLA REVLRLRGAL VDRTQPWSIM PDLYFYRDPE EVEQQVAEEA TTEEAGEEEA KEEVTEEQAE AT EWAEENA DNVEW

UniProtKB: Small ribosomal subunit protein uS2A

Macromolecule #3: 40S ribosomal protein S1-A

• Macromolecule: Name: 40S ribosomal protein S1-A / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 28.798467 KDa

Sequence

String:

MAVGKNKRLS KGKKGQKKRV VDPFTRKEWF DIKAPSTFEN RNVGKTLVNK STGLKSASDA LKGRVVEVCL ADLQGSEDHS FRKIKLRVD EVQGKNLLTN FHGMDFTTDK LRSMVRKWQT LIEANVTVKT SDDYVLRIFA IAFTRKQANQ VKRHSYAQSS H IRAIRKVI SEILTKEVQG STLAQLTSKL IPEVINKEIE NATKDIFPLQ NIHVRKVKLL KQPKFDVGAL MALHGEGSGE EK GKKVTGF KDEVLETV

UniProtKB: Small ribosomal subunit protein eS1A

Macromolecule #4: 40S ribosomal protein S2

• Macromolecule: Name: 40S ribosomal protein S2 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 27.490826 KDa

Sequence

String:

MSAPEAQQQK RGGFGGRNRG RPNRRGPRNT EEKGWVPVTK LGRLVKAGKI TTIEEIFLHS LPVKEFQIID TLLPGLQDEV MNIKPVQKQ TRAGQRTRFK AVVVVGDSNG HVGLGIKTAK EVAGAIRAGI IIAKLSVIPI RRGYWGTNLG QPHSLATKTT G KCGSVTVR LIPAPRGSGI VASPAVKKLL QLAGVEDVYT QSNGKTRTLE NTLKAAFVAI GNTYGFLTPN LWAEQPLPVS PL DIYSDEA SAQKKRF

UniProtKB: Small ribosomal subunit protein uS5

Macromolecule #5: 40S ribosomal protein S4-A

• Macromolecule: Name: 40S ribosomal protein S4-A / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 29.46933 KDa

Sequence

String:

MARGPKKHLK RLAAPHHWLL DKLSGCYAPR PSAGPHKLRE SLPLIVFLRN RLKYALNGRE VKAILMQRHV KVDGKVRTDT TYPAGFMDV ITLDATNENF RLVYDVKGRF AVHRITDEEA SYKLGKVKKV QLGKKGVPYV VTHDGRTIRY PDPNIKVNDT V KIDLASGK ITDFIKFDAG KLVYVTGGRN LGRIGTIVHK ERHDGGFDLV HIKDSLDNTF VTRLNNVFVI GEQGKPYISL PK GKGIKLS IAEERDRRRA QQGL

UniProtKB: Small ribosomal subunit protein eS4A

Macromolecule #6: 40S ribosomal protein S6-A

• Macromolecule: Name: 40S ribosomal protein S6-A / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 27.054486 KDa

Sequence

String:

MKLNISYPVN GSQKTFEIDD EHRIRVFFDK RIGQEVDGEA VGDEFKGYVF KISGGNDKQG FPMKQGVLLP TRIKLLLTKN VSCYRPRRD GERKRKSVRG AIVGPDLAVL ALVIVKKGEQ ELEGLTDTTV PKRLGPKRAN NIRKFFGLSK EDDVRDFVIR R EVTKGEKT YTKAPKIQRL VTPQRLQRKR HQRALKVRNA QAQREAAAEY AQLLAKRLSE RKAEKAEIRK RRASSLKA

UniProtKB: Small ribosomal subunit protein eS6A

Macromolecule #7: 40S ribosomal protein S7-A

• Macromolecule: Name: 40S ribosomal protein S7-A / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 21.658209 KDa

Sequence

String:

MSAPQAKILS QAPTELELQV AQAFVELENS SPELKAELRP LQFKSIREID VAGGKKALAI FVPVPSLAGF HKVQTKLTRE LEKKFQDRH VIFLAERRIL PKPSRTSRQV QKRPRSRTLT AVHDKILEDL VFPTEIVGKR VRYLVGGNKI QKVLLDSKDV Q QIDYKLES FQAVYNKLTG KQIVFEIPSE TH

UniProtKB: Small ribosomal subunit protein eS7A

Macromolecule #8: 40S ribosomal protein S8-A

• Macromolecule: Name: 40S ribosomal protein S8-A / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 22.537803 KDa

Sequence

String:

MGISRDSRHK RSATGAKRAQ FRKKRKFELG RQPANTKIGA KRIHSVRTRG GNKKYRALRI ETGNFSWASE GISKKTRIAG VVYHPSNNE LVRTNTLTKA AIVQIDATPF RQWFEAHYGQ TLGKKKNVKE EETVAKSKNA ERKWAARAAS AKIESSVESQ F SAGRLYAC ISSRPGQSGR CDGYILEGEE LAFYLRRLTA KK

UniProtKB: Small ribosomal subunit protein eS8A

Macromolecule #9: 40S ribosomal protein S9-A

• Macromolecule: Name: 40S ribosomal protein S9-A / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 22.487893 KDa

Sequence

String:

MPRAPRTYSK TYSTPKRPYE SSRLDAELKL AGEFGLKNKK EIYRISFQLS KIRRAARDLL TRDEKDPKRL FEGNALIRRL VRVGVLSED KKKLDYVLAL KVEDFLERRL QTQVYKLGLA KSVHHARVLI TQRHIAVGKQ IVNIPSFMVR LDSEKHIDFA P TSPFGGAR PGRVARRNAA RKAEASGEAA DEADEADEE

UniProtKB: Small ribosomal subunit protein uS4A

Macromolecule #10: 40S ribosomal protein S11-A

• Macromolecule: Name: 40S ribosomal protein S11-A / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 17.785934 KDa

Sequence

String:

MSTELTVQSE RAFQKQPHIF NNPKVKTSKR TKRWYKNAGL GFKTPKTAIE GSYIDKKCPF TGLVSIRGKI LTGTVVSTKM HRTIVIRRA YLHYIPKYNR YEKRHKNVPV HVSPAFRVQV GDIVTVGQCR PISKTVRFNV VKVSAAAGKA NKQFAKF

UniProtKB: Small ribosomal subunit protein uS17A

Macromolecule #11: 40S ribosomal protein S13

• Macromolecule: Name: 40S ribosomal protein S13 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 17.059945 KDa

Sequence

String:

MGRMHSAGKG ISSSAIPYSR NAPAWFKLSS ESVIEQIVKY ARKGLTPSQI GVLLRDAHGV TQARVITGNK IMRILKSNGL APEIPEDLY YLIKKAVSVR KHLERNRKDK DAKFRLILIE SRIHRLARYY RTVAVLPPNW KYESATASAL VN

UniProtKB: Small ribosomal subunit protein uS15

Macromolecule #12: 40S ribosomal protein S14-A

• Macromolecule: Name: 40S ribosomal protein S14-A / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 14.562655 KDa

Sequence

String:

MSNVVQARDN SQVFGVARIY ASFNDTFVHV TDLSGKETIA RVTGGMKVKA DRDESSPYAA MLAAQDVAAK CKEVGITAVH VKIRATGGT RTKTPGPGGQ AALRALARSG LRIGRIEDVT PVPSDSTRKK GGRRGRRL

UniProtKB: Small ribosomal subunit protein uS11A

Macromolecule #13: 40S ribosomal protein S17-A

• Macromolecule: Name: 40S ribosomal protein S17-A / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 15.820413 KDa

Sequence

String:

MGRVRTKTVK RASKALIERY YPKLTLDFQT NKRLCDEIAT IQSKRLRNKI AGYTTHLMKR IQKGPVRGIS FKLQEEERER KDQYVPEVS ALDLSRSNGV LNVDNQTSDL VKSLGLKLPL SVINVSAQRD RRYRKRV

UniProtKB: Small ribosomal subunit protein eS17A

Macromolecule #14: 40S ribosomal protein S21-A

• Macromolecule: Name: 40S ribosomal protein S21-A / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 9.758829 KDa

Sequence

String:

MENDKGQLVE LYVPRKCSAT NRIIKADDHA SVQINVAKVD EEGRAIPGEY VTYALSGYVR SRGESDDSLN RLAQNDGLLK NVWSYSR

UniProtKB: Small ribosomal subunit protein eS21A

Macromolecule #15: 40S ribosomal protein S22-A

• Macromolecule: Name: 40S ribosomal protein S22-A / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 14.650062 KDa

Sequence

String:

MTRSSVLADA LNAINNAEKT GKRQVLIRPS SKVIIKFLQV MQKHGYIGEF EYIDDHRSGK IVVQLNGRLN KCGVISPRFN VKIGDIEKW TANLLPARQF GYVILTTSAG IMDHEEARRK HVSGKILGFV Y

UniProtKB: Small ribosomal subunit protein uS8A

Macromolecule #16: 40S ribosomal protein S23-A

• Macromolecule: Name: 40S ribosomal protein S23-A / type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 16.073896 KDa

Sequence

String:

MGKGKPRGLN SARKLRVHRR NNRWAENNYK KRLLGTAFKS SPFGGSSHAK GIVLEKLGIE SKQPNSAIRK CVRVQLIKNG KKVTAFVPN DGCLNFVDEN DEVLLAGFGR KGKAKGDIPG VRFKVVKVSG VSLLALWKEK KEKPRS

UniProtKB: Small ribosomal subunit protein uS12A

Macromolecule #17: 40S ribosomal protein S24-A

• Macromolecule: Name: 40S ribosomal protein S24-A / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 15.362848 KDa

Sequence

String:

MSDAVTIRTR KVISNPLLAR KQFVVDVLHP NRANVSKDEL REKLAEVYKA EKDAVSVFGF RTQFGGGKSV GFGLVYNSVA EAKKFEPTY RLVRYGLAEK VEKASRQQRK QKKNRDKKIF GTGKRLAKKV ARRNAD

UniProtKB: Small ribosomal subunit protein eS24A

Macromolecule #18: 40S ribosomal protein S27-A

• Macromolecule: Name: 40S ribosomal protein S27-A / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 8.893391 KDa

Sequence

String:

MVLVQDLLHP TAASEARKHK LKTLVQGPRS YFLDVKCPGC LNITTVFSHA QTAVTCESCS TILCTPTGGK AKLSEGTSFR RK

UniProtKB: Small ribosomal subunit protein eS27A

Macromolecule #19: 40S ribosomal protein S29-A

• Macromolecule: Name: 40S ribosomal protein S29-A / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 6.675723 KDa

Sequence

String:

MAHENVWFSH PRRYGKGSRQ CRVCSSHTGL IRKYGLNICR QCFREKANDI GFNKFR

UniProtKB: Small ribosomal subunit protein uS14A

Macromolecule #20: 40S ribosomal protein S30-A

• Macromolecule: Name: 40S ribosomal protein S30-A / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 7.137541 KDa

Sequence

String:

MAKVHGSLAR AGKVKSQTPK VEKTEKPKKP KGRAYKRLLY TRRFVNVTLV NGKRRMNPGP SVQ

UniProtKB: Small ribosomal subunit protein eS30A

Macromolecule #21: 40S ribosomal protein S3

• Macromolecule: Name: 40S ribosomal protein S3 / type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 26.542789 KDa

Sequence

String:

MVALISKKRK LVADGVFYAE LNEFFTRELA EEGYSGVEVR VTPTKTEVII RATRTQDVLG ENGRRINELT LLVQKRFKYA PGTIVLYAE RVQDRGLSAV AQAESMKFKL LNGLAIRRAA YGVVRYVMES GAKGCEVVVS GKLRAARAKA MKFADGFLIH S GQPVNDFI DTATRHVLMR QGVLGIKVKI MRDPAKSRTG PKALPDAVTI IEPKEEEPIL APSVKDYRPA EETEAQAEPV EA

UniProtKB: Small ribosomal subunit protein uS3

Macromolecule #22: 40S ribosomal protein S5

• Macromolecule: Name: 40S ribosomal protein S5 / type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 25.0726 KDa

Sequence

String:

MSDTEAPVEV QEDFEVVEEF TPVVLATPIP EEVQQAQTEI KLFNKWSFEE VEVKDASLVD YVQVRQPIFV AHTAGRYANK RFRKAQCPI IERLTNSLMM NGRNNGKKLK AVRIIKHTLD IINVLTDQNP IQVVVDAITN TGPREDTTRV GGGGAARRQA V DVSPLRRV NQAIALLTIG AREAAFRNIK TIAETLAEEL INAAKGSSTS YAIKKKDELE RVAKSNR

UniProtKB: Small ribosomal subunit protein uS7

Macromolecule #23: 40S ribosomal protein S10-A

• Macromolecule: Name: 40S ribosomal protein S10-A / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 12.757445 KDa

Sequence

String:

MLMPKEDRNK IHQYLFQEGV VVAKKDFNQA KHEEIDTKNL YVIKALQSLT SKGYVKTQFS WQYYYYTLTE EGVEYLREYL NLPEHIVPG TYIQERNPTQ RPQRRY

UniProtKB: Small ribosomal subunit protein eS10A

Macromolecule #24: 40S ribosomal protein S12

• Macromolecule: Name: 40S ribosomal protein S12 / type: protein_or_peptide / ID: 24 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 15.488631 KDa

Sequence

String:

MSDVEEVVEV QEETVVEQTA EVTIEDALKV VLRTALVHDG LARGLRESTK ALTRGEALLV VLVSSVTEAN IIKLVEGLAN DPENKVPLI KVADAKQLGE WAGLGKIDRE GNARKVVGAS VVVVKNWGAE TDELSMIMEH FSQQ

UniProtKB: Small ribosomal subunit protein eS12

Macromolecule #25: 40S ribosomal protein S15

• Macromolecule: Name: 40S ribosomal protein S15 / type: protein_or_peptide / ID: 25 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 16.031907 KDa

Sequence

String:

MSQAVNAKKR VFKTHSYRGV DLEKLLEMST EDFVKLAPAR VRRRFARGMT SKPAGFMKKL RAAKLAAPEN EKPAPVRTHM RNMIIVPEM IGSVVGIYNG KAFNQVEIRP EMLGHYLGEF SITYTPVRHG RAGATTSRFI PLK

UniProtKB: Small ribosomal subunit protein uS19

Macromolecule #26: 40S ribosomal protein S16-A

• Macromolecule: Name: 40S ribosomal protein S16-A / type: protein_or_peptide / ID: 26 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 15.87749 KDa

Sequence

String:

MSAVPSVQTF GKKKSATAVA HVKAGKGLIK VNGSPITLVE PEILRFKVYE PLLLVGLDKF SNIDIRVRVT GGGHVSQVYA IRQAIAKGL VAYHQKYVDE QSKNELKKAF TSYDRTLLIA DSRRPEPKKF GGKGARSRFQ KSYR

UniProtKB: Small ribosomal subunit protein uS9A

Macromolecule #27: 40S ribosomal protein S18-A

• Macromolecule: Name: 40S ribosomal protein S18-A / type: protein_or_peptide / ID: 27 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 17.071641 KDa

Sequence

String:

MSLVVQEQGS FQHILRLLNT NVDGNIKIVY ALTTIKGVGR RYSNLVCKKA DVDLHKRAGE LTQEELERIV QIMQNPTHYK IPAWFLNRQ NDITDGKDYH TLANNVESKL RDDLERLKKI RAHRGIRHFW GLRVRGQHTK TTGRRRA

UniProtKB: Small ribosomal subunit protein uS13A

Macromolecule #28: 40S ribosomal protein S19-A

• Macromolecule: Name: 40S ribosomal protein S19-A / type: protein_or_peptide / ID: 28 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 15.942125 KDa

Sequence

String:

MPGVSVRDVA AQDFINAYAS FLQRQGKLEV PGYVDIVKTS SGNEMPPQDA EGWFYKRAAS VARHIYMRKQ VGVGKLNKLY GGAKSRGVR PYKHIDASGS INRKVLQALE KIGIVEISPK GGRRISENGQ RDLDRIAAQT LEEDE

UniProtKB: Small ribosomal subunit protein eS19A

Macromolecule #29: 40S ribosomal protein S20

• Macromolecule: Name: 40S ribosomal protein S20 / type: protein_or_peptide / ID: 29 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 13.929044 KDa

Sequence

String:

MSDFQKEKVE EQEQQQQQII KIRITLTSTK VKQLENVSSN IVKNAEQHNL VKKGPVRLPT KVLKISTRKT PNGEGSKTWE TYEMRIHKR YIDLEAPVQI VKRITQITIE PGVDVEVVVA SN

UniProtKB: Small ribosomal subunit protein uS10

Macromolecule #30: 40S ribosomal protein S25-A

• Macromolecule: Name: 40S ribosomal protein S25-A / type: protein_or_peptide / ID: 30 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 12.067272 KDa

Sequence

String:

MPPKQQLSKA AKAAAALAGG KKSKKKWSKK SMKDRAQHAV ILDQEKYDRI LKEVPTYRYV SVSVLVDRLK IGGSLARIAL RHLEKEGII KPISKHSKQA IYTRATASE

UniProtKB: Small ribosomal subunit protein eS25A

Macromolecule #31: 40S ribosomal protein S28-A

• Macromolecule: Name: 40S ribosomal protein S28-A / type: protein_or_peptide / ID: 31 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 7.605847 KDa

Sequence

String:

MDNKTPVTLA KVIKVLGRTG SRGGVTQVRV EFLEDTSRTI VRNVKGPVRE NDILVLMESE REARRLR

UniProtKB: Small ribosomal subunit protein eS28A

Macromolecule #32: Ubiquitin-40S ribosomal protein S31

• Macromolecule: Name: Ubiquitin-40S ribosomal protein S31 / type: protein_or_peptide / ID: 32 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 17.254227 KDa

Sequence

String:

MQIFVKTLTG KTITLEVESS DTIDNVKSKI QDKEGIPPDQ QRLIFAGKQL EDGRTLSDYN IQKESTLHLV LRLRGGGKKR KKKVYTTPK KIKHKHKKVK LAVLSYYKVD AEGKVTKLRR ECSNPTCGAG VFLANHKDRL YCGKCHSVYK VNA

UniProtKB: Ubiquitin-ribosomal protein eS31 fusion protein

Macromolecule #33: Guanine nucleotide-binding protein subunit beta-like protein

• Macromolecule: Name: Guanine nucleotide-binding protein subunit beta-like protein; type: protein_or_peptide / ID: 33 / Number of copies: 1 / Enantiomer: LEVO
• Source (natural): Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast)
• Molecular weight: Theoretical: 34.841219 KDa

Sequence

String:

MASNEVLVLR GTLEGHNGWV TSLATSAGQP NLLLSASRDK TLISWKLTGD DQKFGVPVRS FKGHSHIVQD CTLTADGAYA LSASWDKTL RLWDVATGET YQRFVGHKSD VMSVDIDKKA SMIISGSRDK TIKVWTIKGQ CLATLLGHND WVSQVRVVPN E KADDDSVT IISAGNDKMV KAWNLNQFQI EADFIGHNSN INTLTASPDG TLIASAGKDG EIMLWNLAAK KAMYTLSAQD EV FSLAFSP NRYWLAAATA TGIKVFSLDP QYLVDDLRPE FAGYSKAAEP HAVSLAWSAD GQTLFAGYTD NVIRVWQVMT AN

UniProtKB: Small ribosomal subunit protein RACK1

Experimental details

Structure determination

• Method: cryo EM
• Processing: single particle reconstruction
• Aggregation state: particle

Sample preparation

• Buffer: pH: 7.5
• Grid: Model: Quantifoil R2/1 / Material: COPPER / Support film - Material: CARBON / Support film - topology: CONTINUOUS / Support film - Film thickness: 2 / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 30 sec. / Pretreatment - Atmosphere: AIR / Pretreatment - Pressure: 0.045 kPa / Details: 25 mA, 30sec
• Vitrification: Cryogen name: ETHANE / Chamber humidity: 95 % / Chamber temperature: 293 K / Instrument: LEICA EM GP / Details: blot 1.7-1.9 seconds before plunging.

Electron microscopy

• Microscope: FEI TITAN KRIOS
• Image recording: Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Digitization - Frames/image: 1-25 / Number grids imaged: 1 / Number real images: 6480 / Average electron dose: 32.4 e/Ų
• Electron beam: Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
• Electron optics: Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 3.0 µm / Nominal defocus min: 0.8 µm
• Sample stage: Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
• Experimental equipment: Model: Titan Krios / Image courtesy: FEI Company

Image processing

• Particle selection: Number selected: 645109

Startup model

Type of model: PDB ENTRY
PDB model - PDB ID:

4v88

• Final reconstruction: Number classes used: 2 / Applied symmetry - Point group: C₁ (asymmetric) / Algorithm: EXACT BACK PROJECTION / Resolution.type: BY AUTHOR / Resolution: 3.8 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 2.1) / Number images used: 42901
• Initial angle assignment: Type: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 2.1)
• Final angle assignment: Type: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 2.1)
• Final 3D classification: Software - Name: RELION (ver. 2.1)

Atomic model buiding 1

Initial model

PDB ID:

4v88

Chain - Source name: PDB / Chain - Initial model type: experimental model

Output model

PDB-6rbd:
State 1 of yeast Tsr1-TAP Rps20-Deltaloop pre-40S particles

PDB-6rbe:
State 2 of yeast Tsr1-TAP Rps20-Deltaloop pre-40S particles