4d61

Electron Microscopy
9Å resolution

Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated state

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 37-mer (preferred)
Entry contents:
35 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (37 distinct):
40S ribosomal protein SA Chain: A
Molecule details ›
Chain: A
Length: 295 amino acids
Theoretical weight: 32.88 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TWL4 (Residues: 1-295; Coverage: 100%)
Gene names: LOC100340199, RPSA
Sequence domains:
40S ribosomal protein S3a Chain: B
Molecule details ›
Chain: B
Length: 264 amino acids
Theoretical weight: 30 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1SS70 (Residues: 1-264; Coverage: 100%)
Gene names: LOC100342838, LOC100348981, RPS3A
Sequence domains: Ribosomal S3Ae family
S5 DRBM domain-containing protein Chain: C
Molecule details ›
Chain: C
Length: 293 amino acids
Theoretical weight: 31.38 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1SWM1 (Residues: 1-18, 19-152, 153-254; Coverage: 100%)
Sequence domains:
KH type-2 domain-containing protein Chain: D
Molecule details ›
Chain: D
Length: 243 amino acids
Theoretical weight: 26.73 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TNM3 (Residues: 39-281; Coverage: 87%)
Gene name: RPS3
Sequence domains:
40S ribosomal protein S4 Chain: E
Molecule details ›
Chain: E
Length: 263 amino acids
Theoretical weight: 29.51 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TK17 (Residues: 1-263; Coverage: 100%)
Gene name: LOC100338112
Sequence domains:
Ribosomal_S7 domain-containing protein Chain: F
Molecule details ›
Chain: F
Length: 204 amino acids
Theoretical weight: 22.91 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TFM5 (Residues: 1-204; Coverage: 100%)
Gene name: RPS5
Sequence domains: Ribosomal protein S7p/S5e
40S ribosomal protein S6 Chain: G
Molecule details ›
Chain: G
Length: 249 amino acids
Theoretical weight: 28.75 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TM55 (Residues: 1-249; Coverage: 100%)
Sequence domains: Ribosomal protein S6e
40S ribosomal protein S7 Chain: H
Molecule details ›
Chain: H
Length: 194 amino acids
Theoretical weight: 22.17 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1SVB0 (Residues: 1-194; Coverage: 100%)
Sequence domains: Ribosomal protein S7e
40S ribosomal protein S8 Chain: I
Molecule details ›
Chain: I
Length: 208 amino acids
Theoretical weight: 24.26 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TJW1 (Residues: 1-208; Coverage: 100%)
Gene name: LOC100352057
Sequence domains: Ribosomal protein S8e
S4 RNA-binding domain-containing protein Chain: J
Molecule details ›
Chain: J
Length: 194 amino acids
Theoretical weight: 22.64 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: B7NZS8 (Residues: 1-194; Coverage: 100%)
Gene name: RPS9
Sequence domains:
S10_plectin domain-containing protein Chain: K
Molecule details ›
Chain: K
Length: 165 amino acids
Theoretical weight: 18.93 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1T168 (Residues: 61-225; Coverage: 73%)
Gene name: RPS10
Sequence domains: Plectin/S10 domain
Ribosomal_S17_N domain-containing protein Chain: L
Molecule details ›
Chain: L
Length: 158 amino acids
Theoretical weight: 18.47 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TRM4 (Residues: 1-158; Coverage: 100%)
Gene name: RPS11
Sequence domains:
40S ribosomal protein S12 Chain: M
Molecule details ›
Chain: M
Length: 132 amino acids
Theoretical weight: 14.54 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1SFR8 (Residues: 1-132; Coverage: 100%)
Gene name: RPS12
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Ribosomal_S13_N domain-containing protein Chain: N
Molecule details ›
Chain: N
Length: 151 amino acids
Theoretical weight: 17.26 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1SP51 (Residues: 1-151; Coverage: 100%)
Sequence domains:
40S RIBOSOMAL PROTEIN S14 Chain: O
Molecule details ›
Chain: O
Length: 151 amino acids
Theoretical weight: 16.3 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1T1F0 (Residues: 6-156; Coverage: 97%)
Gene name: RPS14
Sequence domains: Ribosomal protein S11
Ribosomal protein S15 Chain: P
Molecule details ›
Chain: P
Length: 145 amino acids
Theoretical weight: 17.08 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1U0Q2 (Residues: 1-145; Coverage: 100%)
Gene name: RPS15
Sequence domains: Ribosomal protein S19
40S RIBOSOMAL PROTEIN S16 Chain: Q
Molecule details ›
Chain: Q
Length: 146 amino acids
Theoretical weight: 16.48 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1SGX4 (Residues: 27-172; Coverage: 85%)
Gene name: RPS16
Sequence domains: Ribosomal protein S9/S16
40S RIBOSOMAL PROTEIN S17 Chain: R
Molecule details ›
Chain: R
Length: 135 amino acids
Theoretical weight: 15.58 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TU13 (Residues: 1-135; Coverage: 100%)
Gene names: LOC100353606, RPS17
Sequence domains: Ribosomal S17
40S RIBOSOMAL PROTEIN S18 Chain: S
Molecule details ›
Chain: S
Length: 152 amino acids
Theoretical weight: 17.76 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TPG3 (Residues: 1-152; Coverage: 100%)
Gene name: RPS18
Sequence domains: Ribosomal protein S13/S18
40S RIBOSOMAL PROTEIN S19 Chain: T
Molecule details ›
Chain: T
Length: 145 amino acids
Theoretical weight: 16.09 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TN62 (Residues: 1-145; Coverage: 100%)
Gene name: LOC100345774
Sequence domains: Ribosomal protein S19e
Ribosomal_S10 domain-containing protein Chain: U
Molecule details ›
Chain: U
Length: 119 amino acids
Theoretical weight: 13.4 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1SIZ2 (Residues: 1-119; Coverage: 100%)
Gene names: LOC100341365, LOC100348955, LOC100354063, RPS20
Sequence domains: Ribosomal protein S10p/S20e
40S ribosomal protein S21 Chain: V
Molecule details ›
Chain: V
Length: 83 amino acids
Theoretical weight: 9.12 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TM82 (Residues: 1-83; Coverage: 100%)
Gene name: RPS21
Sequence domains: Ribosomal protein S21e
40S RIBOSOMAL PROTEIN S15A Chain: W
Molecule details ›
Chain: W
Length: 130 amino acids
Theoretical weight: 14.87 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TG89 (Residues: 1-130; Coverage: 100%)
Gene name: RPS15A
Sequence domains: Ribosomal protein S8
40S RIBOSOMAL PROTEIN S23 Chain: X
Molecule details ›
Chain: X
Length: 143 amino acids
Theoretical weight: 15.84 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1SZ47 (Residues: 2-143; Coverage: 99%)
Gene name: RPS23
Sequence domains: Ribosomal protein S12/S23
40S ribosomal protein S24 Chain: Y
Molecule details ›
Chain: Y
Length: 133 amino acids
Theoretical weight: 15.46 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TS40 (Residues: 1-133; Coverage: 100%)
Sequence domains: Ribosomal protein S24e
40S ribosomal protein S25 Chain: Z
Molecule details ›
Chain: Z
Length: 125 amino acids
Theoretical weight: 13.78 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TDB3 (Residues: 1-125; Coverage: 100%)
Sequence domains: S25 ribosomal protein
40S ribosomal protein S26 Chain: a
Molecule details ›
Chain: a
Length: 115 amino acids
Theoretical weight: 13.05 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TFE8 (Residues: 1-115; Coverage: 100%)
Gene name: LOC100346996
Sequence domains: Ribosomal protein S26e
40S ribosomal protein S27 Chain: b
Molecule details ›
Chain: b
Length: 84 amino acids
Theoretical weight: 9.48 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TZ76 (Residues: 1-84; Coverage: 100%)
Gene names: LOC100345044, LOC100345694, LOC100348261, RPS27
Sequence domains: Ribosomal protein S27
Ribosomal protein S28 Chain: c
Molecule details ›
Chain: c
Length: 69 amino acids
Theoretical weight: 7.86 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1TIB4 (Residues: 1-69; Coverage: 100%)
Gene name: RPS28
Sequence domains: Ribosomal protein S28e
40S RIBOSOMAL PROTEIN S29 Chain: d
Molecule details ›
Chain: d
Length: 56 amino acids
Theoretical weight: 6.69 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1U7M4 (Residues: 1-56; Coverage: 100%)
Gene name: LOC100337712
Sequence domains: Ribosomal protein S14p/S29e
40S ribosomal protein S30 Chain: e
Molecule details ›
Chain: e
Length: 59 amino acids
Theoretical weight: 6.67 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1T8A2 (Residues: 75-133; Coverage: 44%)
Gene name: FAU
Sequence domains: Ribosomal protein S30
Ubiquitin-like domain-containing protein Chain: f
Molecule details ›
Chain: f
Length: 156 amino acids
Theoretical weight: 18 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1SK22 (Residues: 1-156; Coverage: 100%)
Sequence domains:
WD_REPEATS_REGION domain-containing protein Chain: g
Molecule details ›
Chain: g
Length: 317 amino acids
Theoretical weight: 35.12 KDa
Source organism: Oryctolagus cuniculus
UniProt:
  • Canonical: G1SJB4 (Residues: 1-317; Coverage: 100%)
Gene name: RACK1
Sequence domains: WD domain, G-beta repeat
Eukaryotic peptide chain release factor subunit 1 Chain: h
Molecule details ›
Chain: h
Length: 436 amino acids
Theoretical weight: 49.04 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P62495 (Residues: 5-437; Coverage: 99%)
Gene names: ERF1, ETF1, RF1, SUP45L1
Sequence domains:
Eukaryotic peptide chain release factor GTP-binding subunit ERF3A Chain: i
Molecule details ›
Chain: i
Length: 426 amino acids
Theoretical weight: 47.89 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P15170 (Residues: 72-497; Coverage: 85%)
Gene names: ERF3A, GSPT1
Sequence domains:
18S Ribosomal RNA Chain: 1
Molecule details ›
Chain: 1
Length: 1869 nucleotides
Theoretical weight: 602.78 KDa
Sequence domains: Eukaryotic small subunit ribosomal RNA
CRICKET PARALYSIS VIRUS IRES RNA Chain: j
Molecule details ›
Chain: j
Length: 201 nucleotides
Theoretical weight: 64.36 KDa
Sequence domains: Cripavirus internal ribosome entry site (IRES)

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution:
Relevant EMDB volumes: EMD-2813
Expression system: Escherichia coli BL21(DE3)