› 3dkn

Electron Microscopy
8.7Å resolution

Sec61 in the Canine ribosome-channel complex from the endoplasmic reticulum

Released:
DOI: 10.2210/pdb3dkn/pdb
PDB entry 3dkn coloured by chain, front view.
PDB entry 3dkn coloured by chain, side view.
PDB entry 3dkn coloured by chain, top view.
Source organism: Canis lupus familiaris
Primary publication:
Single copies of Sec61 and TRAP associate with a nontranslating mammalian ribosome.
Ménétret JF, Hegde RS, Aguiar M, Gygi SP, Park E, Rapoport TA, Akey CW
Structure 16 1126-37 (2008)
PMID: 18611385
Related structures: EMD-1528

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
PDBe Complex ID:
PDB-CPX-158011 (preferred)
Entry contents:
3 distinct polypeptide molecules
3 distinct RNA molecules
Macromolecules (6 distinct):
Protein translocase subunit SecY Chain: A
Molecule details ›
Chain: A
Length: 430 amino acids
Theoretical weight: 46.74 KDa
Source organism: Canis lupus familiaris
UniProt:
  • Canonical: Q60175 (Residues: 2-433; Coverage: 99%)
Gene names: MJ0478, secY
Sequence domains:
Protein translocase subunit SecE Chain: B
Molecule details ›
Chain: B
Length: 65 amino acids
Theoretical weight: 7.44 KDa
Source organism: Canis lupus familiaris
UniProt:
  • Canonical: Q57817 (Residues: 3-67; Coverage: 88%)
Gene names: MJ0371, secE
Sequence domains: SecE/Sec61-gamma subunits of protein translocation complex
Preprotein translocase subunit SecG Chain: C
Molecule details ›
Chain: C
Length: 32 amino acids
Theoretical weight: 3.64 KDa
Source organism: Canis lupus familiaris
UniProt:
  • Canonical: P60460 (Residues: 21-52; Coverage: 60%)
Gene names: MJ0912.1, secG
Sequence domains: Sec61beta family
RNA (5'-R(P*CP*GP*UP*GP*CP*CP*AP*AP*GP*CP*UP*GP*CP*GP*AP*UP*AP*AP*GP*C)-3') Chain: D
Molecule details ›
Chain: D
Length: 20 nucleotides
Theoretical weight: 6.42 KDa
RNA (5'-R(P*AP*GP*CP*CP*GP*CP*AP*CP*GP*GP*AP*GP*GP*CP*GP*AP*A)-3') Chain: E
Molecule details ›
Chain: E
Length: 17 nucleotides
Theoretical weight: 5.54 KDa
RNA (32-MER) Chain: F
Molecule details ›
Chain: F
Length: 32 nucleotides
Theoretical weight: 10.29 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 8.7Å
Relevant EMDB volumes: EMD-1528

Quick links

Citations

23 review citations

Proteomics: a pragmatic perspective.
Mallick et al. (2010)
22 more

1 mention without citation

Crystal structure of a type III Rubisco in complex with its product 3-phosphoglycerate.
Huang et al. (2023)