› 487d

Electron Microscopy
7.5Å resolution

SEVEN RIBOSOMAL PROTEINS FITTED TO A CRYO-ELECTRON MICROSCOPIC MAP OF THE LARGE 50S SUBUNIT AT 7.5 ANGSTROMS RESOLUTION

Released:
DOI: 10.2210/pdb487d/pdb
PDB entry 487d coloured by chain, front view.
PDB entry 487d coloured by chain, side view.
PDB entry 487d coloured by chain, top view.
Source organisms:
Primary publication:
The 3D arrangement of the 23 S and 5 S rRNA in the Escherichia coli 50 S ribosomal subunit based on a cryo-electron microscopic reconstruction at 7.5 A resolution.
Mueller F, Sommer I, Baranov P, Matadeen R, Stoldt M, Wöhnert J, Görlach M, van Heel M, Brimacombe R
J Mol Biol 298 35-59 (2000)
PMID: 10756104

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero heptamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-135754 (preferred)
Entry contents:
7 distinct polypeptide molecules
Macromolecules (7 distinct):
Large ribosomal subunit protein uL1 Chain: H
Molecule details ›
Chain: H
Length: 224 amino acids
Theoretical weight: 24.33 KDa
Source organism: Thermus thermophilus
UniProt:
  • Canonical: Q5SLP7 (Residues: 6-229; Coverage: 98%)
Gene names: TTHA0246, rplA
Sequence domains: Ribosomal protein L1p/L10e family
Large ribosomal subunit protein uL2 Chain: I
Molecule details ›
Chain: I
Length: 135 amino acids
Theoretical weight: 14.76 KDa
Source organism: Geobacillus stearothermophilus
UniProt:
  • Canonical: P04257 (Residues: 61-195; Coverage: 49%)
Gene name: rplB
Sequence domains:
Large ribosomal subunit protein uL6 Chain: J
Molecule details ›
Chain: J
Length: 164 amino acids
Theoretical weight: 17.81 KDa
Source organism: Geobacillus stearothermophilus
UniProt:
  • Canonical: P02391 (Residues: 8-171; Coverage: 92%)
Gene name: rplF
Sequence domains: Ribosomal protein L6
Large ribosomal subunit protein bL9 Chain: K
Molecule details ›
Chain: K
Length: 149 amino acids
Theoretical weight: 16.34 KDa
Source organism: Geobacillus stearothermophilus
UniProt:
  • Canonical: P02417 (Residues: 1-149; Coverage: 100%)
Gene name: rplI
Sequence domains:
Large ribosomal subunit protein uL11 Chain: L
Molecule details ›
Chain: L
Length: 133 amino acids
Theoretical weight: 14.29 KDa
Source organism: Thermotoga maritima
UniProt:
  • Canonical: P29395 (Residues: 8-140; Coverage: 94%)
Gene names: TM_0454, rplK
Sequence domains:
Large ribosomal subunit protein uL14 Chain: M
Molecule details ›
Chain: M
Length: 122 amino acids
Theoretical weight: 13.37 KDa
Source organism: Geobacillus stearothermophilus
UniProt:
  • Canonical: P04450 (Residues: 1-122; Coverage: 100%)
Gene name: rplN
Sequence domains: Ribosomal protein L14p/L23e
Large ribosomal subunit protein bL25 Chain: N
Molecule details ›
Chain: N
Length: 94 amino acids
Theoretical weight: 10.71 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P68919 (Residues: 1-94; Coverage: 100%)
Gene names: JW2173, b2185, rplY
Sequence domains: Ribosomal L25p family

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 3 x MSE

Experiments and Validation Details

Entry percentile scores
Resolution: 7.5Å

Quick links

Citations

16 review citations

Macrolide resistance conferred by base substitutions in 23S rRNA.
Vester et al. (2001)
15 more

3 mentions without citation

The amino terminal domain from Mrt4 protein can functionally replace the RNA binding domain of the ribosomal P0 protein.
Rodríguez-Mateos et al. (2009)
2 more