Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 24.70 kDa 
• Atom Count: 1775 
• Modelled Residue Count: 220 
• Deposited Residue Count: 220 
• Unique protein chains: 1

1I4J

CRYSTAL STRUCTURE OF L22 RIBOSOMAL PROTEIN MUTANT

• PDB DOI: 10.2210/pdb1I4J/pdb

• Classification: RNA BINDING PROTEIN
• Organism(s): Thermus thermophilus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2001-02-22 Released: 2002-09-11 
• Deposition Author(s): Davydova, N.L., Streltsov, V.A., Fedorov, R., Wilce, M., Liljas, A., Garder, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.255 
• R-Value Work: 0.209 
• R-Value Observed: 0.208 

Literature

L22 ribosomal protein and effect of its mutation on ribosome resistance to erythromycin.

Davydova, N., Streltsov, V., Wilce, M., Liljas, A., Garber, M.

(2002) J Mol Biol 322: 635-644

• PubMed: 12225755 
• DOI: 10.1016/s0022-2836(02)00772-6
• Primary Citation of Related Structures:  
  1I4J


• PubMed Abstract: 
  

The ribosomal protein L22 is a core protein of the large ribosomal subunit interacting with all domains of the 23S rRNA. The triplet Met82-Lys83-Arg84 deletion in L22 from Escherichia coli renders cells resistant to erythromycin which is known as an inhibitor of the nascent peptide chain elongation. The crystal structure of the Thermus thermophilus L22 mutant with equivalent triplet Leu82-Lys83-Arg84 deletion has been determined at 1.8A resolution. The superpositions of the mutant and the wild-type L22 structures within the 50S subunits from Haloarcula marismortui and Deinococcus radiodurans show that the mutant beta-hairpin is bent inward the ribosome tunnel modifying the shape of its narrowest part and affecting the interaction between L22 and 23S rRNA. 23S rRNA nucleotides of domain V participating in erythromycin binding are located on the opposite sides of the tunnel and are brought to those positions by the interaction of the 23S rRNA with the L22 beta-hairpin. The mutation in the L22 beta-hairpin affects the orientation and distances between those nucleotides. This destabilizes the erythromycin-binding "pocket" formed by 23S rRNA nucleotides exposed at the tunnel surface. It seems that erythromycin, while still being able to interact with one side of the tunnel but not reaching the other, is therefore unable to block the polypeptide growth in the drug-resistant ribosome.

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Organizational Affiliation: 

Institute of Protein Research, Moscow Region 142 290, Pushchino, Russia. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
50S RIBOSOMAL PROTEIN L22	A, B	110	Thermus thermophilus	Mutation(s): 0  Gene Names: rpl22, rplV
UniProt
Find proteins for P48286 (Thermus thermophilus) Explore P48286  Go to UniProtKB:  P48286

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.255 
• R-Value Work: 0.209 
• R-Value Observed: 0.208 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 31.88	α = 90
b = 86.59	β = 104.47
c = 38.96	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
MAR345	data collection
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-02-22 
• Released Date: 2002-09-11 
Deposition Author(s): Davydova, N.L., Streltsov, V.A., Fedorov, R., Wilce, M., Liljas, A., Garder, M.

Revision History  

• Version 1.0: 2002-09-11
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-04
  Changes: Refinement description