1KUQ

CRYSTAL STRUCTURE OF T3C MUTANT S15 RIBOSOMAL PROTEIN IN COMPLEX WITH 16S RRNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.84 Å
  • R-Value Free: 0.322 
  • R-Value Work: 0.231 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Role of N-terminal helix in interaction of ribosomal protein S15 with 16S rRNA.

Revtovich, S.V.Nikulin, A.D.Nikonov, S.V.

(2004) Biochemistry Mosc. 69: 1319-1323


  • PubMed Abstract: 
  • The position and conformation of the N-terminal helix of free ribosomal protein S15 was earlier found to be modified under various conditions. This variability was supposed to provide the recognition by the protein of its specific site on 16S rRNA. T ...

    The position and conformation of the N-terminal helix of free ribosomal protein S15 was earlier found to be modified under various conditions. This variability was supposed to provide the recognition by the protein of its specific site on 16S rRNA. To test this hypothesis, we substituted some amino acid residues in this helix and assessed effects of these substitutions on the affinity of the protein for 16S rRNA. The crystal structure of the complex of one of these mutants (Thr3Cys S15) with the 16S rRNA fragment was determined, and a computer model of the complex containing another mutant (Gln8Met S15) was designed. The available and new information was analyzed in detail, and the N-terminal helix was concluded to play no significant role in the specific binding of the S15 protein to its target on 16S rRNA.


    Related Citations: 
    • Crystal structure of the S15-rRNA complex
      Nikulin, A.,Serganov, A.,Ennifar, E.,Tishchenko, S.,Nevskaya, N.,Shepard, W.,Portier, C.,Garber, M.,Ehresmann, B.,Ehresmann, C.,Nikonov, S.,Dumas, P.
      (2000) Nat.Struct.Mol.Biol. 7: 273


    Organizational Affiliation

    Institute of Protein Research, Russian Academy of Sciences, Pushchino, Moscow Region 142290, Russia.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
30S RIBOSOMAL PROTEIN S15
A
87Thermus thermophilusGene Names: rpsO (rps15)
Find proteins for P80378 (Thermus thermophilus)
Go to UniProtKB:  P80378
Entity ID: 1
MoleculeChainsLengthOrganism
16S RIBOSOMAL RNA FRAGMENTB57Thermus thermophilus
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.84 Å
  • R-Value Free: 0.322 
  • R-Value Work: 0.231 
  • Space Group: P 64 2 2
Unit Cell:
Length (Å)Angle (°)
a = 128.229α = 90.00
b = 128.229β = 90.00
c = 64.951γ = 120.00
Software Package:
Software NamePurpose
CNSrefinement
CCP4data scaling
DENZOdata reduction
SCALAdata scaling
CNSphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-06-24
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance