› 4qvi

X-ray diffraction
1.9Å resolution

Crystal structure of mutant ribosomal protein M218L TthL1 in complex with 80nt 23S RNA from Thermus thermophilus

Released:
DOI: 10.2210/pdb4qvi/pdb
PDB entry 4qvi coloured by chain, front view.
PDB entry 4qvi coloured by chain, side view.
PDB entry 4qvi coloured by chain, top view.
Source organism: Thermus thermophilus
Primary publication:
Protein-RNA affinity of ribosomal protein L1 mutants does not correlate with the number of intermolecular interactions.
Tishchenko S, Kostareva O, Gabdulkhakov A, Mikhaylina A, Nikonova E, Nevskaya N, Sarskikh A, Piendl W, Garber M, Nikonov S
Acta Crystallogr D Biol Crystallogr 71 376-86 (2015)
PMID: 25664749

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-250233 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct RNA molecule
Macromolecules (3 distinct):
Large ribosomal subunit protein uL1 Chain: A
Molecule details ›
Chain: A
Length: 229 amino acids
Theoretical weight: 24.85 KDa
Source organism: Thermus thermophilus
Expression system: Escherichia coli
UniProt:
  • Canonical: P27150 (Residues: 1-229; Coverage: 100%)
Gene names: rpl1, rplA
Sequence domains: Ribosomal protein L1p/L10e family
Structure domains:
fragment of 23S rRNA Chain: B
Molecule details ›
Chain: B
Length: 80 nucleotides
Theoretical weight: 25.97 KDa
Source organism: Thermus thermophilus
Expression system: Escherichia coli
Sequence domains: Bacterial large subunit ribosomal RNA

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC, FRU
Carbohydrate polymer
3 bound ligands:
Ligand SO4 4 x SO4
Ligand ACT 4 x ACT
Ligand MES 1 x MES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: BRUKER AXS MICROSTAR
Spacegroup: P212121
Unit cell:
a: 73.136Å b: 75.845Å c: 86.502Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.196 0.194 0.217
Expression system: Escherichia coli

Quick links

Citations

3 citation in other articles

A unified dinucleotide alphabet describing both RNA and DNA structures.
Černý et al. (2020)
2 more

4 mentions without citation

RNAvista: a webserver to assess RNA secondary structures with non-canonical base pairs.
Antczak et al. (2019)
3 more