› 8fru

Electron Microscopy
2.49Å resolution

60S subunit of the Giardia lamblia 80S ribosome

Released:
DOI: 10.2210/pdb8fru/pdb
PDB entry 8fru coloured by chain, front view.
PDB entry 8fru coloured by chain, side view.
PDB entry 8fru coloured by chain, top view.
Source organism: Giardia intestinalis assemblage A
Primary publication:
The Giardia lamblia ribosome structure reveals divergence in several biological pathways and the mode of emetine function.
Eiler DR, Wimberly BT, Bilodeau DY, Taliaferro JM, Reigan P, Rissland OS, Kieft JS
Structure (2024)
PMID: 38242118
Related structures: EMD-29407

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 43-mer (preferred)
PDBe Complex ID:
PDB-CPX-275642 (preferred)
Entry contents:
40 distinct polypeptide molecules
3 distinct RNA molecules
Macromolecules (43 distinct):
LSU ribosomal protein L3P Chain: B
Molecule details ›
Chain: B
Length: 379 amino acids
Theoretical weight: 42.69 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: V6TF11 (Residues: 1-379; Coverage: 100%)
Gene name: DHA2_16525
Sequence domains: Ribosomal protein L3
Ribosomal protein L27a Chain: a
Molecule details ›
Chain: a
Length: 149 amino acids
Theoretical weight: 17.17 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BZ78 (Residues: 1-149; Coverage: 100%)
Gene name: GL50803_0016310
Sequence domains: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
Ribosomal protein L4 Chain: C
Molecule details ›
Chain: C
Length: 316 amino acids
Theoretical weight: 35.05 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8B7H8 (Residues: 1-316; Coverage: 100%)
Gene name: GL50803_0017547
Sequence domains:
Ribosomal protein L10 Chain: I
Molecule details ›
Chain: I
Length: 210 amino acids
Theoretical weight: 24.28 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BM86 (Residues: 1-210; Coverage: 100%)
Gene name: GL50803_0010428
Sequence domains: Ribosomal protein L16p/L10e
Ribosomal protein L37a Chain: p
Molecule details ›
Chain: p
Length: 94 amino acids
Theoretical weight: 10.51 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BN26 (Residues: 1-94; Coverage: 100%)
Gene name: GL50803_005517
Sequence domains: Ribosomal L37ae protein family
Ribosomal protein L5 Chain: D
Molecule details ›
Chain: D
Length: 297 amino acids
Theoretical weight: 33.96 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: E2RU47 (Residues: 1-297; Coverage: 100%)
Gene name: GL50803_0017395
Sequence domains:
Ribosomal protein L6 Chain: H
Molecule details ›
Chain: H
Length: 185 amino acids
Theoretical weight: 20.89 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BNT5 (Residues: 1-185; Coverage: 100%)
Gene name: GL50803_0017056
Sequence domains: Ribosomal protein L6
60S ribosomal protein L7a Chain: G
Molecule details ›
Chain: G
Length: 225 amino acids
Theoretical weight: 25.43 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BLL7 (Residues: 1-225; Coverage: 100%)
Gene name: GL50803_0017244
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Ribosomal protein L11 Chain: J
Molecule details ›
Chain: J
Length: 173 amino acids
Theoretical weight: 19.77 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BI95 (Residues: 1-173; Coverage: 100%)
Gene name: GL50803_005593
Sequence domains:
Ribosomal protein L13a Chain: O
Molecule details ›
Chain: O
Length: 197 amino acids
Theoretical weight: 22.92 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BU75 (Residues: 1-197; Coverage: 100%)
Gene name: GL50803_0011247
Sequence domains: Ribosomal protein L13
60S ribosomal protein eL13 Chain: L
Molecule details ›
Chain: L
Length: 234 amino acids
Theoretical weight: 26.64 KDa
Source organism: Giardia intestinalis assemblage A
Ribosomal protein L14 Chain: M
Molecule details ›
Chain: M
Length: 131 amino acids
Theoretical weight: 14.79 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8B4F8 (Residues: 1-131; Coverage: 100%)
Gene name: GL50803_0014091
Sequence domains: Ribosomal protein L14
Ribosomal protein L15 Chain: N
Molecule details ›
Chain: N
Length: 204 amino acids
Theoretical weight: 24.35 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8B8Z6 (Residues: 1-204; Coverage: 100%)
Gene name: GL50803_008001
Sequence domains: Ribosomal L15
Ribosomal protein L18 Chain: Q
Molecule details ›
Chain: Q
Length: 179 amino acids
Theoretical weight: 20.21 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8B4T7 (Residues: 1-179; Coverage: 100%)
Gene name: GL50803_0011950
Sequence domains: Ribosomal protein 60S L18 and 50S L18e
Large ribosomal subunit protein eL20 domain-containing protein Chain: S
Molecule details ›
Chain: S
Length: 205 amino acids
Theoretical weight: 24.39 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: V6TB90 (Residues: 1-205; Coverage: 100%)
Gene name: DHA2_16387
Sequence domains: Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A
Ribosomal protein L19 Chain: R
Molecule details ›
Chain: R
Length: 196 amino acids
Theoretical weight: 23.2 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BH61 (Residues: 1-196; Coverage: 100%)
Gene name: GL50803_0016431
Sequence domains: Ribosomal protein L19e
Ribosomal protein L21 Chain: T
Molecule details ›
Chain: T
Length: 159 amino acids
Theoretical weight: 18.3 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8B2Q4 (Residues: 1-159; Coverage: 100%)
Gene name: GL50803_0015520
Sequence domains: Ribosomal protein L21e
Ribosomal protein L23 Chain: V
Molecule details ›
Chain: V
Length: 142 amino acids
Theoretical weight: 15.45 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BS37 (Residues: 1-142; Coverage: 100%)
Gene name: GL50803_0010091
Sequence domains: Ribosomal protein L14p/L23e
Ribosomal protein L17 Chain: P
Molecule details ›
Chain: P
Length: 164 amino acids
Theoretical weight: 18.72 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BE76 (Residues: 1-164; Coverage: 100%)
Gene name: GL50803_0098056
Sequence domains: Ribosomal protein L22p/L17e
Ribosomal protein L23A Chain: X
Molecule details ›
Chain: X
Length: 141 amino acids
Theoretical weight: 16.05 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BMP6 (Residues: 1-141; Coverage: 100%)
Gene name: GL50803_007870
Sequence domains:
LSU ribosomal protein L24P Chain: Y
Molecule details ›
Chain: Y
Length: 135 amino acids
Theoretical weight: 15.62 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: V6TD19 (Residues: 17-151; Coverage: 89%)
Gene name: DHA2_15046
Sequence domains: Ribosomal proteins L26 eukaryotic, L24P archaeal
Large ribosomal subunit protein eL24-related N-terminal domain-containing protein Chain: W
Molecule details ›
Chain: W
Length: 102 amino acids
Theoretical weight: 12.01 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BRH7 (Residues: 1-102; Coverage: 100%)
Gene name: GL50803_0019003
Sequence domains: Ribosomal protein L24e
Ribosomal protein L27 Chain: Z
Molecule details ›
Chain: Z
Length: 135 amino acids
Theoretical weight: 15.37 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8B1T3 (Residues: 1-135; Coverage: 100%)
Gene name: GL50803_008462
Sequence domains:
60S ribosomal protein L29 Chain: b
Molecule details ›
Chain: b
Length: 62 amino acids
Theoretical weight: 7.36 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: V6TAA6 (Residues: 14-75; Coverage: 83%)
Gene name: DHA2_14457
Sequence domains: Ribosomal L29e protein family
LSU ribosomal protein L29P/L35 Chain: h
Molecule details ›
Chain: h
Length: 124 amino acids
Theoretical weight: 14.32 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A0A132NRN1 (Residues: 1-124; Coverage: 100%)
Gene name: QR46_3636
Sequence domains: Ribosomal L29 protein
Ribosomal protein L7 Chain: F
Molecule details ›
Chain: F
Length: 235 amino acids
Theoretical weight: 27.1 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BRY6 (Residues: 1-235; Coverage: 100%)
Gene name: GL50803_0019436
Sequence domains: Ribosomal protein L30p/L7e
Ribosomal protein L31e Chain: d
Molecule details ›
Chain: d
Length: 106 amino acids
Theoretical weight: 12.18 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BMP3 (Residues: 1-106; Coverage: 100%)
Gene name: GL50803_0016368
Sequence domains: Ribosomal protein L31e
Ribosomal protein L32 Chain: e
Molecule details ›
Chain: e
Length: 136 amino acids
Theoretical weight: 15.99 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BMD9 (Residues: 1-136; Coverage: 100%)
Gene name: GL50803_0014049
Sequence domains: Ribosomal protein L32
Ribosomal protein L34 Chain: g
Molecule details ›
Chain: g
Length: 120 amino acids
Theoretical weight: 13.53 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BMF7 (Residues: 1-120; Coverage: 100%)
Gene name: GL50803_0036069
Sequence domains: Ribosomal protein L34e
Ribosomal protein L35a Chain: f
Molecule details ›
Chain: f
Length: 123 amino acids
Theoretical weight: 13.91 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BKK5 (Residues: 1-123; Coverage: 100%)
Gene name: GL50803_005947
Sequence domains: Ribosomal protein L35Ae
Ribosomal protein L36e Chain: i
Molecule details ›
Chain: i
Length: 90 amino acids
Theoretical weight: 10.59 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BYA6 (Residues: 1-90; Coverage: 100%)
Gene name: GL50803_0016114
Sequence domains: Ribosomal protein L36e
Ribosomal L38e Chain: k
Molecule details ›
Chain: k
Length: 77 amino acids
Theoretical weight: 8.61 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8B481 (Residues: 1-77; Coverage: 100%)
Gene name: GL50803_0034093
Sequence domains: Ribosomal L38e protein family
Ribosomal protein L44 Chain: o
Molecule details ›
Chain: o
Length: 106 amino acids
Theoretical weight: 12.31 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BQU8 (Residues: 1-106; Coverage: 100%)
Gene name: GL50803_009810
Sequence domains: Ribosomal protein L44
Large ribosomal subunit protein eL22 Chain: U
Molecule details ›
Chain: U
Length: 171 amino acids
Theoretical weight: 19.94 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: V6TJ98 (Residues: 1-171; Coverage: 100%)
Gene name: DHA2_16044
Sequence domains: Ribosomal L22e protein family
Ribosomal protein L30 Chain: c
Molecule details ›
Chain: c
Length: 109 amino acids
Theoretical weight: 11.7 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8B5N7 (Residues: 1-109; Coverage: 100%)
Gene name: GL50803_0014321
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Ribosomal protein L37 Chain: j
Molecule details ›
Chain: j
Length: 100 amino acids
Theoretical weight: 11.47 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: V6TG99 (Residues: 1-100; Coverage: 100%)
Gene name: DHA2_154535
Sequence domains: Ribosomal protein L37e
60S ribosomal protein eL39 Chain: l
Molecule details ›
Chain: l
Length: 51 amino acids
Theoretical weight: 6.53 KDa
Source organism: Giardia intestinalis assemblage A
50S ribosomal protein L40e Chain: m
Molecule details ›
Chain: m
Length: 127 amino acids
Theoretical weight: 14.34 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: A8BXE1 (Residues: 1-127; Coverage: 100%)
Gene name: GL50803_005665
Sequence domains:
Ribosomal protein L8 Chain: A
Molecule details ›
Chain: A
Length: 251 amino acids
Theoretical weight: 27.09 KDa
Source organism: Giardia intestinalis assemblage A
UniProt:
  • Canonical: E2RTN4 (Residues: 1-251; Coverage: 100%)
Gene name: GL50803_0016086
Sequence domains:
60S ribosomal protein eL41 Chain: n
Molecule details ›
Chain: n
Length: 25 amino acids
Theoretical weight: 2.15 KDa
Source organism: Giardia intestinalis assemblage A
5S ribosomal RNA Chain: 3
Molecule details ›
Chain: 3
Length: 120 nucleotides
Theoretical weight: 38.67 KDa
Sequence domains: 5S ribosomal RNA
5.8S ribosomal RNA Chain: 4
Molecule details ›
Chain: 4
Length: 141 nucleotides
Theoretical weight: 45.59 KDa
28S ribosomal RNA Chain: 1
Molecule details ›
Chain: 1
Length: 2687 nucleotides
Theoretical weight: 871.35 KDa
Sequence domains: Eukaryotic large subunit ribosomal RNA

Ligands and Environments

5 bound ligands:
Ligand K 27 x K
Ligand MG 129 x MG
Ligand ZN 2 x ZN
Ligand NA 33 x NA
Ligand SPD 1 x SPD
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.49Å
Relevant EMDB volumes: EMD-29407

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