› 7a1g

Electron Microscopy
3Å resolution

Structure of a crosslinked yeast ABCE1-bound 43S pre-initiation complex

Released:
DOI: 10.2210/pdb7a1g/pdb
PDB entry 7a1g coloured by chain, front view.
PDB entry 7a1g coloured by chain, side view.
PDB entry 7a1g coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
A structural inventory of native ribosomal ABCE1-43S pre-initiation complexes.
Kratzat H, Mackens-Kiani T, Ameismeier M, Potocnjak M, Cheng J, Dacheux E, Namane A, Berninghausen O, Herzog F, Fromont-Racine M, Becker T, Beckmann R
EMBO J 40 e105179 (2021)
PMID: 33289941
Related structures: EMD-11608

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 37-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-126851 (preferred)
Entry contents:
35 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (36 distinct):
Small ribosomal subunit protein uS2A Chain: P
Molecule details ›
Chain: P
Length: 206 amino acids
Theoretical weight: 22.81 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32905 (Residues: 2-207; Coverage: 82%)
Gene names: NAB1, NAB1A, RPS0A, YGR214W, YST1
Sequence domains: Ribosomal protein S2
Small ribosomal subunit protein eS1A Chain: Q
Molecule details ›
Chain: Q
Length: 232 amino acids
Theoretical weight: 26.31 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P33442 (Residues: 2-233; Coverage: 91%)
Gene names: L9753.9, PLC1, RPS10A, RPS1A, YLR441C
Sequence domains: Ribosomal S3Ae family
Small ribosomal subunit protein uS5 Chain: R
Molecule details ›
Chain: R
Length: 216 amino acids
Theoretical weight: 23.08 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P25443 (Residues: 34-249; Coverage: 85%)
Gene names: G2893, RPS2, RPS4, SUP38, SUP44, YGL123W
Sequence domains:
Small ribosomal subunit protein eS4A Chain: S
Molecule details ›
Chain: S
Length: 258 amino acids
Theoretical weight: 29.17 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX35 (Residues: 2-259; Coverage: 99%)
Gene names: J2186, RPS4A, RPS7B, YJR145C
Sequence domains:
Small ribosomal subunit protein eS6A Chain: T
Molecule details ›
Chain: T
Length: 228 amino acids
Theoretical weight: 26.18 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX37 (Residues: 1-228; Coverage: 97%)
Gene names: LPG18C, RPS101, RPS10B, RPS6A, YPL090C
Sequence domains: Ribosomal protein S6e
Small ribosomal subunit protein eS7A Chain: U
Molecule details ›
Chain: U
Length: 184 amino acids
Theoretical weight: 21 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P26786 (Residues: 4-187; Coverage: 97%)
Gene names: RPS30, RPS7A, YOR096W, YOR3177W
Sequence domains: Ribosomal protein S7e
Small ribosomal subunit protein eS8A Chain: V
Molecule details ›
Chain: V
Length: 200 amino acids
Theoretical weight: 22.54 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX39 (Residues: 1-200; Coverage: 100%)
Gene names: RPS14A, RPS8A, YBL06.05, YBL0613, YBL072C
Sequence domains: Ribosomal protein S8e
Small ribosomal subunit protein uS4A Chain: W
Molecule details ›
Chain: W
Length: 184 amino acids
Theoretical weight: 21.08 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: O13516 (Residues: 2-185; Coverage: 93%)
Gene names: RPS13A, RPS9A, YPL081W, YS11A
Sequence domains:
Small ribosomal subunit protein uS17A Chain: X
Molecule details ›
Chain: X
Length: 142 amino acids
Theoretical weight: 16.27 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX47 (Residues: 4-145; Coverage: 91%)
Gene names: RPS11A, RPS18A, YD9813.03, YDR025W
Sequence domains:
Small ribosomal subunit protein uS15 Chain: Y
Molecule details ›
Chain: Y
Length: 150 amino acids
Theoretical weight: 16.93 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05756 (Residues: 2-151; Coverage: 99%)
Gene names: D4252, RPS13, RPS13C, YD9609.18, YDR064W
Sequence domains:
Small ribosomal subunit protein uS11B Chain: Z
Molecule details ›
Chain: Z
Length: 127 amino acids
Theoretical weight: 13.45 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P39516 (Residues: 12-138; Coverage: 92%)
Gene names: CRY2, J0354, RPS14B, YJL191W
Sequence domains: Ribosomal protein S11
Small ribosomal subunit protein eS21A Chain: a
Molecule details ›
Chain: a
Length: 87 amino acids
Theoretical weight: 9.76 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0C0V8 (Residues: 1-87; Coverage: 100%)
Gene names: RPS21A, RPS25, RPS25A, RPS26A, YKR057W
Sequence domains: Ribosomal protein S21e
Small ribosomal subunit protein uS8A Chain: b
Molecule details ›
Chain: b
Length: 129 amino acids
Theoretical weight: 14.52 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0C0W1 (Residues: 2-130; Coverage: 99%)
Gene names: J0355, RPS22A, RPS24, RPS24A, YJL190C
Sequence domains: Ribosomal protein S8
Small ribosomal subunit protein uS12A Chain: c
Molecule details ›
Chain: c
Length: 144 amino acids
Theoretical weight: 15.94 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX29 (Residues: 2-145; Coverage: 99%)
Gene names: G6178, RPS23A, RPS28A, YGR118W
Sequence domains: Ribosomal protein S12/S23
Small ribosomal subunit protein eS24A Chain: d
Molecule details ›
Chain: d
Length: 134 amino acids
Theoretical weight: 15.23 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX31 (Residues: 2-135; Coverage: 99%)
Gene names: RPS24A, RPS24EA, YER074W
Sequence domains: Ribosomal protein S24e
Small ribosomal subunit protein eS26B Chain: e
Molecule details ›
Chain: e
Length: 97 amino acids
Theoretical weight: 11.02 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P39939 (Residues: 2-98; Coverage: 82%)
Gene names: RPS26B, YER131W
Sequence domains: Ribosomal protein S26e
Small ribosomal subunit protein eS27A Chain: f
Molecule details ›
Chain: f
Length: 81 amino acids
Theoretical weight: 8.76 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P35997 (Residues: 2-82; Coverage: 99%)
Gene names: RPS27A, YKL156W
Sequence domains: Ribosomal protein S27
Small ribosomal subunit protein eS30A Chain: g
Molecule details ›
Chain: g
Length: 60 amino acids
Theoretical weight: 6.78 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX33 (Residues: 2-61; Coverage: 95%)
Gene names: L8003.23, RPS30A, YLR287BC, YLR287C-A
Sequence domains: Ribosomal protein S30
Small ribosomal subunit protein uS19 Chain: E
Molecule details ›
Chain: E
Length: 117 amino acids
Theoretical weight: 13.27 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q01855 (Residues: 13-129; Coverage: 82%)
Gene names: RPS15, RPS21, YOL040C
Sequence domains: Ribosomal protein S19
Small ribosomal subunit protein uS3 Chain: A
Molecule details ›
Chain: A
Length: 222 amino acids
Theoretical weight: 24.63 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05750 (Residues: 4-225; Coverage: 93%)
Gene names: N1653, RPS3, SUF14, YNL178W
Sequence domains:
Small ribosomal subunit protein uS7 Chain: B
Molecule details ›
Chain: B
Length: 206 amino acids
Theoretical weight: 22.91 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P26783 (Residues: 20-225; Coverage: 92%)
Gene names: J2045, RPS2, RPS5, YJR123W
Sequence domains: Ribosomal protein S7p/S5e
Small ribosomal subunit protein eS10A Chain: C
Molecule details ›
Chain: C
Length: 92 amino acids
Theoretical weight: 11.04 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q08745 (Residues: 1-92; Coverage: 88%)
Gene names: RPS10A, YOR293W
Sequence domains: Plectin/S10 domain
Small ribosomal subunit protein eS12 Chain: D
Molecule details ›
Chain: D
Length: 121 amino acids
Theoretical weight: 13.03 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P48589 (Residues: 23-143; Coverage: 85%)
Gene names: RPS12, YOR369C
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Small ribosomal subunit protein uS9A Chain: F
Molecule details ›
Chain: F
Length: 141 amino acids
Theoretical weight: 15.66 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX51 (Residues: 3-143; Coverage: 99%)
Gene names: RP61R, RPS16A, YM9375.12, YMR143W
Sequence domains: Ribosomal protein S9/S16
Small ribosomal subunit protein eS17B Chain: H
Molecule details ›
Chain: H
Length: 125 amino acids
Theoretical weight: 14.27 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P14127 (Residues: 2-126; Coverage: 92%)
Gene names: RP51B, RPS17B, YDR447C
Sequence domains: Ribosomal S17
Small ribosomal subunit protein uS13A Chain: I
Molecule details ›
Chain: I
Length: 145 amino acids
Theoretical weight: 16.94 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0CX55 (Residues: 2-146; Coverage: 99%)
Gene names: D9461.35, RPS18A, YDR450W
Sequence domains: Ribosomal protein S13/S18
Small ribosomal subunit protein eS19A Chain: J
Molecule details ›
Chain: J
Length: 143 amino acids
Theoretical weight: 15.81 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P07280 (Residues: 2-144; Coverage: 99%)
Gene names: RP55A, RPS16AA, RPS19A, YOL121C
Sequence domains: Ribosomal protein S19e
Small ribosomal subunit protein uS10 Chain: K
Molecule details ›
Chain: K
Length: 100 amino acids
Theoretical weight: 11.36 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38701 (Residues: 20-119; Coverage: 83%)
Gene names: RPS20, URP2, YHL015W
Sequence domains: Ribosomal protein S10p/S20e
Small ribosomal subunit protein eS25A Chain: L
Molecule details ›
Chain: L
Length: 82 amino acids
Theoretical weight: 9.54 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q3E792 (Residues: 24-105; Coverage: 76%)
Gene names: RPS25A, RPS31A, YGR027C
Sequence domains: S25 ribosomal protein
Small ribosomal subunit protein uS14A Chain: M
Molecule details ›
Chain: M
Length: 53 amino acids
Theoretical weight: 6.34 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P41057 (Residues: 4-56; Coverage: 95%)
Gene names: L8084.11, RPS29A, RPS36A, YLR388W, YS29A
Sequence domains: Ribosomal protein S14p/S29e
Small ribosomal subunit protein eS31 Chain: N
Molecule details ›
Chain: N
Length: 73 amino acids
Theoretical weight: 8.39 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05759 (Residues: 80-152; Coverage: 48%)
Gene names: L9470.14, RPS31, RPS37, UBI3, YLR167W
Sequence domains: Ribosomal protein S27a
Small ribosomal subunit protein RACK1 Chain: O
Molecule details ›
Chain: O
Length: 312 amino acids
Theoretical weight: 34.15 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38011 (Residues: 5-316; Coverage: 98%)
Gene names: ASC1, CPC2, YM9718.15C, YMR116C
Sequence domains: WD domain, G-beta repeat
Small ribosomal subunit protein eS28A Chain: h
Molecule details ›
Chain: h
Length: 63 amino acids
Theoretical weight: 7.12 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q3E7X9 (Residues: 5-67; Coverage: 94%)
Gene names: O3600, RPS28A, RPS33, RPS33A, YOR167C
Sequence domains: Ribosomal protein S28e
Eukaryotic translation initiation factor 3 subunit J Chains: y, z
Molecule details ›
Chains: y, z
Length: 265 amino acids
Theoretical weight: 29.61 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q05775 (Residues: 1-265; Coverage: 100%)
Gene names: HCR1, L8167.11, YLR192C
Sequence domains: Translation initiation factor eIF3 subunit
Translation initiation factor RLI1 Chain: x
Molecule details ›
Chain: x
Length: 601 amino acids
Theoretical weight: 67.71 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q03195 (Residues: 4-604; Coverage: 99%)
Gene names: RLI1, YDR091C
Sequence domains:
18S Ribosomal RNA Chain: 2
Molecule details ›
Chain: 2
Length: 1771 nucleotides
Theoretical weight: 570.59 KDa
Sequence domains: Eukaryotic small subunit ribosomal RNA

Ligands and Environments

4 bound ligands:
Ligand MG 80 x MG
Ligand ZN 2 x ZN
Ligand SF4 2 x SF4
Ligand ADP 1 x ADP
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3Å
Relevant EMDB volumes: EMD-11608

Quick links

Citations

5 review citations

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