› 2wwa

Electron Microscopy
8.9Å resolution

Cryo-EM structure of idle yeast Ssh1 complex bound to the yeast 80S ribosome

Released:
DOI: 10.2210/pdb2wwa/pdb
PDB entry 2wwa coloured by chain, front view.
PDB entry 2wwa coloured by chain, side view.
PDB entry 2wwa coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structure of monomeric yeast and mammalian Sec61 complexes interacting with the translating ribosome.
Becker T, Bhushan S, Jarasch A, Armache JP, Funes S, Jossinet F, Gumbart J, Mielke T, Berninghausen O, Schulten K, Westhof E, Gilmore R, Mandon EC, Beckmann R
Science 326 1369-73 (2009)
PMID: 19933108
Related structures: EMD-1669

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero pentadecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-137856 (preferred)
Entry contents:
11 distinct polypeptide molecules
4 distinct RNA molecules
Macromolecules (15 distinct):
Sec sixty-one protein homolog Chain: A
Molecule details ›
Chain: A
Length: 490 amino acids
Theoretical weight: 53.35 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P38353 (Residues: 1-490; Coverage: 100%)
Gene names: SSH1, YBR2020, YBR283C
Sequence domains:
Protein transport protein SSS1 Chain: B
Molecule details ›
Chain: B
Length: 80 amino acids
Theoretical weight: 8.96 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P35179 (Residues: 1-80; Coverage: 100%)
Gene names: D4475, SSS1, YDR086C
Sequence domains: SecE/Sec61-gamma subunits of protein translocation complex
Protein transport protein SBH2 Chain: C
Molecule details ›
Chain: C
Length: 87 amino acids
Theoretical weight: 9.51 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P52871 (Residues: 1-87; Coverage: 99%)
Gene names: SBH2, SEB2, YER019BC, YER019C-A
Sequence domains: Sec61beta family
Large ribosomal subunit protein uL4B Chain: H
Molecule details ›
Chain: H
Length: 362 amino acids
Theoretical weight: 39.13 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P49626 (Residues: 1-362; Coverage: 100%)
Gene names: RPL2B, RPL4B, YD8119.17, YDR012W
Sequence domains:
Large ribosomal subunit protein uL22A Chain: I
Molecule details ›
Chain: I
Length: 184 amino acids
Theoretical weight: 20.59 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P05740 (Residues: 1-184; Coverage: 100%)
Gene names: RPL17, RPL17A, RPL20A, YKL180W
Sequence domains: Ribosomal protein L22p/L17e
Large ribosomal subunit protein eL19A Chain: J
Molecule details ›
Chain: J
Length: 189 amino acids
Theoretical weight: 21.76 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P0CX82 (Residues: 1-189; Coverage: 100%)
Gene names: RPL19A, RPL23A, YBR084BC, YBR084C-A, YL14A
Sequence domains: Ribosomal protein L19e
Large ribosomal subunit protein uL23 Chain: K
Molecule details ›
Chain: K
Length: 142 amino acids
Theoretical weight: 15.79 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P04456 (Residues: 1-142; Coverage: 100%)
Gene names: RPL25, YOL127W
Sequence domains:
Large ribosomal subunit protein uL24A Chain: L
Molecule details ›
Chain: L
Length: 127 amino acids
Theoretical weight: 14.27 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P05743 (Residues: 1-127; Coverage: 100%)
Gene names: L8300.4, RPL26, RPL26A, RPL33A, YLR344W
Sequence domains:
Large ribosomal subunit protein eL31A Chain: M
Molecule details ›
Chain: M
Length: 113 amino acids
Theoretical weight: 12.98 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P0C2H8 (Residues: 1-113; Coverage: 100%)
Gene names: D2478, RPL31A, RPL34, RPL34A, YDL075W
Sequence domains: Ribosomal protein L31e
Large ribosomal subunit protein uL29A Chain: N
Molecule details ›
Chain: N
Length: 120 amino acids
Theoretical weight: 13.94 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P0CX84 (Residues: 1-120; Coverage: 100%)
Gene names: D1249, RPL35A, SOS1, YDL191W
Sequence domains: Ribosomal L29 protein
Large ribosomal subunit protein eL39 Chain: O
Molecule details ›
Chain: O
Length: 51 amino acids
Theoretical weight: 6.36 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P04650 (Residues: 1-51; Coverage: 100%)
Gene names: J0360, RPL39, RPL46, SPB2, YJL189W
Sequence domains: Ribosomal L39 protein
25S ribosomal RNA Chain: D
Molecule details ›
Chain: D
Length: 63 nucleotides
Theoretical weight: 20.3 KDa
Sequence domains: 5.8S ribosomal RNA
25S ribosomal RNA Chain: E
Molecule details ›
Chain: E
Length: 34 nucleotides
Theoretical weight: 11.09 KDa
25S ribosomal RNA Chain: F
Molecule details ›
Chain: F
Length: 25 nucleotides
Theoretical weight: 8.05 KDa
25S ribosomal RNA Chain: G
Molecule details ›
Chain: G
Length: 18 nucleotides
Theoretical weight: 5.7 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 8.9Å
Relevant EMDB volumes: EMD-1669

Quick links

Citations

43 review citations

Mechanisms of Sec61/SecY-mediated protein translocation across membranes.
Park et al. (2012)
42 more

3 mentions without citation

The yeast ERAD-C ubiquitin ligase Doa10 recognizes an intramembrane degron.
Habeck et al. (2015)
2 more