› 3j77

Electron Microscopy
6.2Å resolution

Structures of yeast 80S ribosome-tRNA complexes in the rotated and non-rotated conformations (Class II - rotated ribosome with 1 tRNA)

Released:
DOI: 10.2210/pdb3j77/pdb
PDB entry 3j77 coloured by chain, front view.
PDB entry 3j77 coloured by chain, side view.
PDB entry 3j77 coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structures of yeast 80S ribosome-tRNA complexes in the rotated and nonrotated conformations.
Svidritskiy E, Brilot AF, Koh CS, Grigorieff N, Korostelev AA
Structure 22 1210-1218 (2014)
PMID: 25043550
Related structures: EMD-5976

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 83-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-126764 (preferred)
Entry contents:
77 distinct polypeptide molecules
6 distinct RNA molecules
Macromolecules (83 distinct):
Large ribosomal subunit protein uL1A Chain: L1
Molecule details ›
Chain: L1
Length: 217 amino acids
Theoretical weight: 24.52 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P0CX43 (Residues: 1-217; Coverage: 100%)
Gene names: RPL1A, SSM1, SSM1A, YPL220W
Sequence domains: Ribosomal protein L1p/L10e family
Large ribosomal subunit protein uL2A Chain: L2
Molecule details ›
Chain: L2
Length: 254 amino acids
Theoretical weight: 27.46 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P0CX45 (Residues: 1-254; Coverage: 100%)
Gene names: RPL2A, RPL5B, YFR031BC, YFR031C-A
Sequence domains:
Large ribosomal subunit protein uL3 Chain: L3
Large ribosomal subunit protein uL4A Chain: L4
Large ribosomal subunit protein uL18 Chain: L5
Large ribosomal subunit protein eL6A Chain: L6
Large ribosomal subunit protein uL30A Chain: L7
Large ribosomal subunit protein eL8A Chain: L8
Large ribosomal subunit protein uL6A Chain: L9
Large ribosomal subunit protein uL16 Chain: 60
Large ribosomal subunit protein uL5A Chain: 61
Large ribosomal subunit protein uL11A Chain: 62
Large ribosomal subunit protein eL13A Chain: 63
Large ribosomal subunit protein eL14A Chain: 64
Large ribosomal subunit protein eL15A Chain: 65
Large ribosomal subunit protein uL13A Chain: 66
Large ribosomal subunit protein uL22A Chain: 67
Large ribosomal subunit protein eL18A Chain: 68
Large ribosomal subunit protein eL19A Chain: 69
Large ribosomal subunit protein eL20A Chain: 70
Large ribosomal subunit protein eL21A Chain: 71
Large ribosomal subunit protein eL22A Chain: 72
Large ribosomal subunit protein uL14A Chain: 73
Large ribosomal subunit protein eL24A Chain: 74
Large ribosomal subunit protein uL23 Chain: 75
Large ribosomal subunit protein uL24A Chain: 76
Large ribosomal subunit protein eL27A Chain: 77
Large ribosomal subunit protein uL15 Chain: 78
Large ribosomal subunit protein eL29 Chain: 79
Large ribosomal subunit protein eL30 Chain: 80
Large ribosomal subunit protein eL31A Chain: 81
Large ribosomal subunit protein eL32 Chain: 82
Large ribosomal subunit protein eL33A Chain: 83
Large ribosomal subunit protein eL34A Chain: 84
Large ribosomal subunit protein uL29A Chain: 85
Large ribosomal subunit protein eL36A Chain: 86
Large ribosomal subunit protein eL37A Chain: 87
Large ribosomal subunit protein eL38 Chain: 88
Large ribosomal subunit protein eL39 Chain: 89
Ubiquitin-ribosomal protein eL40A fusion protein Chain: 90
Small ribosomal subunit protein eS32A Chain: 91
Large ribosomal subunit protein eL42A Chain: 92
Large ribosomal subunit protein eL43A Chain: 93
Large ribosomal subunit protein uL10 Chain: P0
Small ribosomal subunit protein RACK1 Chain: RC
Small ribosomal subunit protein uS2A Chain: S0
Small ribosomal subunit protein eS1A Chain: S1
Small ribosomal subunit protein uS5 Chain: S2
Small ribosomal subunit protein uS3 Chain: S3
Small ribosomal subunit protein eS4A Chain: S4
Small ribosomal subunit protein uS7 Chain: S5
Small ribosomal subunit protein eS6A Chain: S6
Small ribosomal subunit protein eS7A Chain: S7
Small ribosomal subunit protein eS8A Chain: S8
Small ribosomal subunit protein uS4A Chain: S9
Small ribosomal subunit protein eS10A Chain: 10
Small ribosomal subunit protein uS17A Chain: 11
Small ribosomal subunit protein eS12 Chain: 12
Small ribosomal subunit protein uS15 Chain: 13
Small ribosomal subunit protein uS11A Chain: 14
Small ribosomal subunit protein uS19 Chain: 15
Small ribosomal subunit protein uS9A Chain: 16
Small ribosomal subunit protein eS17A Chain: 17
Small ribosomal subunit protein uS13A Chain: 18
Small ribosomal subunit protein eS19A Chain: 19
Small ribosomal subunit protein uS10 Chain: 20
Small ribosomal subunit protein eS21A Chain: 21
Small ribosomal subunit protein uS8A Chain: 22
Small ribosomal subunit protein uS12A Chain: 23
Small ribosomal subunit protein eS24A Chain: 24
Small ribosomal subunit protein eS25A Chain: 25
Small ribosomal subunit protein eS26A Chain: 26
Small ribosomal subunit protein eS27A Chain: 27
Small ribosomal subunit protein eS28A Chain: 28
Small ribosomal subunit protein uS14A Chain: 29
Small ribosomal subunit protein eS30A Chain: 30
Ubiquitin-ribosomal protein eS31 fusion protein Chain: 31
18S Ribosomal RNA Chain: 1S
25S ribosomal RNA Chain: 2S
5.8S ribosomal RNA Chain: 8S
5S ribosomal RNA Chain: 5S
Messenger RNA Chain: MR
P/E-site initiator transfer RNAfMet Chain: PT

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 6.2Å
Relevant EMDB volumes: EMD-5976

Quick links

Citations

8 review citations

Frealign: An Exploratory Tool for Single-Particle Cryo-EM.
Grigorieff N. (2016)
7 more

14 mentions without citation

Collided ribosomes form a unique structural interface to induce Hel2-driven quality control pathways.
Ikeuchi et al. (2019)
13 more

Experimental raw data

Links to raw experimental data available for this entry are listed below

Electron microscopy data related to PDB entry 3j77 found at the Electron Microscopy Public Image Archive (EMPIAR)

Data DOI: 10.6019/EMPIAR-10016
Datasets: 1
Total size: 42Gb
EMPIAR thumbnail