6woo

Electron Microscopy
2.9Å resolution

CryoEM structure of yeast 80S ribosome with Met-tRNAiMet, eIF5B, and GDP

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 84-mer (preferred)
PDBe Complex ID:
PDB-CPX-300408 (preferred)
Entry contents:
78 distinct polypeptide molecules
6 distinct RNA molecules
Macromolecules (84 distinct):
Large ribosomal subunit protein uL2A Chain: A
Molecule details ›
Chain: A
Length: 249 amino acids
Theoretical weight: 26.86 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P0CX45 (Residues: 2-250; Coverage: 98%)
Gene names: RPL2A, RPL5B, YFR031BC, YFR031C-A
Sequence domains:
Large ribosomal subunit protein uL3 Chain: B
Molecule details ›
Chain: B
Length: 384 amino acids
Theoretical weight: 43.49 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P14126 (Residues: 2-385; Coverage: 99%)
Gene names: MAK8, RPL3, TCM1, YOR063W, YOR29-14
Sequence domains: Ribosomal protein L3
Large ribosomal subunit protein uL4A Chain: C
Large ribosomal subunit protein uL18 Chain: D
Large ribosomal subunit protein eL6A Chain: E
Large ribosomal subunit protein uL30A Chain: F
Large ribosomal subunit protein eL8A Chain: G
Large ribosomal subunit protein uL6B Chain: H
Large ribosomal subunit protein uL16 Chain: I
Large ribosomal subunit protein uL5B Chain: J
Large ribosomal subunit protein eL13A Chain: L
Large ribosomal subunit protein eL14A Chain: M
Large ribosomal subunit protein eL15A Chain: N
Large ribosomal subunit protein uL13A Chain: O
Large ribosomal subunit protein uL22A Chain: P
Large ribosomal subunit protein eL18A Chain: Q
Large ribosomal subunit protein eL19A Chain: R
Large ribosomal subunit protein eL20A Chain: S
Large ribosomal subunit protein eL21A Chain: T
Large ribosomal subunit protein eL22A Chain: U
Large ribosomal subunit protein uL14A Chain: V
Large ribosomal subunit protein eL24A Chain: W
Large ribosomal subunit protein uL23 Chain: X
Large ribosomal subunit protein uL24A Chain: Y
Large ribosomal subunit protein eL27A Chain: Z
Large ribosomal subunit protein uL15 Chain: a
Large ribosomal subunit protein eL29 Chain: b
Large ribosomal subunit protein eL30 Chain: c
Large ribosomal subunit protein eL31A Chain: d
Large ribosomal subunit protein eL32 Chain: e
Large ribosomal subunit protein eL33A Chain: f
Large ribosomal subunit protein eL34A Chain: g
Large ribosomal subunit protein uL29A Chain: h
Large ribosomal subunit protein eL36A Chain: i
Large ribosomal subunit protein eL37A Chain: j
Large ribosomal subunit protein eL38 Chain: k
Large ribosomal subunit protein eL39 Chain: l
Large ribosomal subunit protein eL40A Chain: m
eL41 Chain: n
Large ribosomal subunit protein eL42A Chain: o
Large ribosomal subunit protein eL43A Chain: p
Large ribosomal subunit protein uL1A Chain: q
Large ribosomal subunit protein uL10 Chain: r
L10 Chain: K
Small ribosomal subunit protein uS2B Chain: AA
Small ribosomal subunit protein eS1B Chain: BB
Small ribosomal subunit protein uS5 Chain: CC
Small ribosomal subunit protein uS3 Chain: DD
Small ribosomal subunit protein eS4A Chain: EE
Small ribosomal subunit protein uS7 domain-containing protein Chain: FF
Small ribosomal subunit protein eS6A Chain: GG
Small ribosomal subunit protein eS7A Chain: HH
Small ribosomal subunit protein eS8A Chain: II
Small ribosomal subunit protein uS4B Chain: JJ
Small ribosomal subunit protein eS10A Chain: KK
Small ribosomal subunit protein uS17A Chain: LL
Small ribosomal subunit protein eS12 Chain: MM
Small ribosomal subunit protein uS15 Chain: NN
Small ribosomal subunit protein uS11B Chain: OO
Small ribosomal subunit protein uS19 Chain: PP
Small ribosomal subunit protein uS9A Chain: QQ
Small ribosomal subunit protein eS17B Chain: RR
Small ribosomal subunit protein uS13A Chain: SS
Small ribosomal subunit protein eS19A Chain: TT
Small ribosomal subunit protein uS10 Chain: UU
Small ribosomal subunit protein eS21A Chain: VV
Small ribosomal subunit protein uS8A Chain: WW
Small ribosomal subunit protein uS12A Chain: XX
Small ribosomal subunit protein eS24A Chain: YY
Small ribosomal subunit protein eS25A Chain: ZZ
Small ribosomal subunit protein eS26B Chain: aa
Small ribosomal subunit protein eS27A Chain: bb
Small ribosomal subunit protein eS28A Chain: cc
Small ribosomal subunit protein uS14A Chain: dd
Small ribosomal subunit protein eS30A Chain: ee
Small ribosomal subunit protein eS31 Chain: ff
Small ribosomal subunit protein RACK1 Chain: gg
Eukaryotic translation initiation factor 5B Chain: 1
25S ribosomal RNA Chain: 5
5S ribosomal RNA Chain: 7
5.8S ribosomal rRNA Chain: 8
18S Ribosomal RNA Chain: 2
Met-tRNA-iMet Chain: 3
Messenger RNA Chain: 4

Ligands and Environments

No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 2.9Å
Relevant EMDB volumes: EMD-21859
Expression system: Escherichia coli