5anb

Electron Microscopy
4.1Å resolution

Mechanism of eIF6 release from the nascent 60S ribosomal subunit

Released:
Related structures: EMD-3146

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 12-mer (preferred)
Entry contents:
11 distinct polypeptide molecules
1 distinct RNA molecule
Macromolecules (12 distinct):
60S ribosomal protein L3 Chain: A
Molecule details ›
Chain: A
Length: 398 amino acids
Theoretical weight: 45.16 KDa
Source organism: Dictyostelium discoideum
UniProt:
  • Canonical: P34113 (Residues: 1-398; Coverage: 100%)
Gene names: DDB_G0291862, rpl3
Sequence domains: Ribosomal protein L3
60S ribosomal protein L9 Chain: B
Molecule details ›
Chain: B
Length: 188 amino acids
Theoretical weight: 21.25 KDa
Source organism: Dictyostelium discoideum
UniProt:
  • Canonical: Q54XI5 (Residues: 1-188; Coverage: 100%)
Gene names: DDB_G0278959, rpl9
Sequence domains: Ribosomal protein L6
60S acidic ribosomal protein P0 Chain: C
Molecule details ›
Chain: C
Length: 205 amino acids
Theoretical weight: 22.43 KDa
Source organism: Dictyostelium discoideum
UniProt:
  • Canonical: P22685 (Residues: 1-205; Coverage: 67%)
Gene names: DDB_G0286501, rplp0
Sequence domains:
60S ribosomal protein L12 Chain: D
Molecule details ›
Chain: D
Length: 166 amino acids
Theoretical weight: 17.81 KDa
Source organism: Dictyostelium discoideum
UniProt:
  • Canonical: Q54J50 (Residues: 1-166; Coverage: 100%)
Gene names: DDB_G0288295, rpl12
Sequence domains:
60S ribosomal protein L23 Chain: E
Molecule details ›
Chain: E
Length: 136 amino acids
Theoretical weight: 14.57 KDa
Source organism: Dictyostelium discoideum
UniProt:
  • Canonical: Q54G86 (Residues: 1-136; Coverage: 100%)
Gene names: DDB_G0290315, rpl23
Sequence domains: Ribosomal protein L14p/L23e
60S ribosomal protein L10 Chain: F
Molecule details ›
Chain: F
Length: 217 amino acids
Theoretical weight: 24.59 KDa
Source organism: Dictyostelium discoideum
UniProt:
  • Canonical: Q54J69 (Residues: 1-217; Coverage: 100%)
Gene names: DDB_G0288273, rpl10, rpl10e
Sequence domains: Ribosomal protein L16p/L10e
60S ribosomal protein L24 Chain: G
Molecule details ›
Chain: G
Length: 69 amino acids
Theoretical weight: 8.33 KDa
Source organism: Dictyostelium discoideum
UniProt:
  • Canonical: Q54VN6 (Residues: 1-69; Coverage: 54%)
Gene names: DDB_G0280229, rpl24
Sequence domains: Ribosomal protein L24e
60S ribosomal protein L40 Chain: H
Molecule details ›
Chain: H
Length: 52 amino acids
Theoretical weight: 6.17 KDa
Source organism: Dictyostelium discoideum
UniProt:
  • Canonical: P14794 (Residues: 77-128; Coverage: 41%)
Gene names: DDB_G0280755, ubqB
Sequence domains: Ribosomal L40e family
Eukaryotic translation initiation factor 6 Chain: I
Molecule details ›
Chain: I
Length: 224 amino acids
Theoretical weight: 24.11 KDa
Source organism: Dictyostelium discoideum
UniProt:
  • Canonical: Q551M2 (Residues: 1-224; Coverage: 92%)
Gene names: DDB_G0276493, eif6
Sequence domains: eIF-6 family
Ribosome maturation protein SBDS Chain: J
Molecule details ›
Chain: J
Length: 250 amino acids
Theoretical weight: 28.81 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9Y3A5 (Residues: 1-250; Coverage: 100%)
Gene names: CGI-97, SBDS
Sequence domains:
Elongation factor-like GTPase 1 Chain: K
Molecule details ›
Chain: K
Length: 1120 amino acids
Theoretical weight: 125.58 KDa
Source organism: Homo sapiens
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q7Z2Z2 (Residues: 1-1120; Coverage: 100%)
Gene names: EFL1, EFTUD1, FAM42A
Sequence domains:
26S RIBOSOMAL RNA Chain: N
Molecule details ›
Chain: N
Length: 3741 nucleotides
Theoretical weight: 1206 KDa
Sequence domains: Eukaryotic large subunit ribosomal RNA

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.1Å
Relevant EMDB volumes: EMD-3146
Expression systems:
  • Escherichia coli BL21(DE3)
  • Saccharomyces cerevisiae