1LOU

RIBOSOMAL PROTEIN S6


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.197 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural changes in the transition state of protein folding: alternative interpretations of curved chevron plots.

Otzen, D.E.Kristensen, O.Proctor, M.Oliveberg, M.

(1999) Biochemistry 38: 6499-6511

  • DOI: 10.1021/bi982819j
  • Also Cited By: 2BXJ

  • PubMed Abstract: 
  • The interpretation of folding rates is often rationalized within the context of transition state theory. This means that the reaction rate is linked to an activation barrier, the height of which is determined by the free energy difference between a g ...

    The interpretation of folding rates is often rationalized within the context of transition state theory. This means that the reaction rate is linked to an activation barrier, the height of which is determined by the free energy difference between a ground state (the starting point) and an apparent transition state. Changes in the folding kinetics are thus caused by effects on either the ground state, the transition state, or both. However, structural changes of the transition state are rarely discussed in connection with experimental data, and kinetic anomalies are commonly ascribed to ground state effects alone, e.g., depletion or accumulation of structural intermediates upon addition of denaturant. In this study, we present kinetic data which are best described by transition state changes. We also show that ground state effects and transition state effects are in general difficult to distinguish kinetically. The analysis is based on the structurally homologous proteins U1A and S6. Both proteins display two-state behavior, but there is a marked difference in their kinetics. S6 exhibits a classical V-shaped chevron plot (log observed rate constant vs denaturant concentration), whereas U1A's chevron plot is symmetrically curved, like an inverted bell curve. However, S6 is readily mutated to display U1A-like kinetics. The seemingly drastic effects of these mutations are readily ascribed to transition state movements where large kinetic differences result from relatively small alterations of a common free energy profile and broad activation barriers.


    Related Citations: 
    • Crystal Structure of the Ribosomal Protein S6 from Thermus Thermophilus
      Lindahl, M.,Svensson, L.A.,Liljas, A.,Sedelnikova, S.E.,Eliseikina, I.A.,Fomenkova, N.P.,Nevskaya, N.,Nikonov, S.V.,Garber, M.B.,Muranova, T.A.,Rykonova, A.I.,Amons, R.
      (1994) Embo J. 13:6: 1249
    • High-Energy Channelling in Protein Folding
      Silow, M.,Oliveberg, M.
      (1997) Biochemistry 36: 7633


    Organizational Affiliation

    Department of Biochemistry, Chemical Centre, University of Lund, Sweden.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
RIBOSOMAL PROTEIN S6
A
101Thermus thermophilusGene Names: rpsF (rps6)
Find proteins for P23370 (Thermus thermophilus)
Go to UniProtKB:  P23370
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.197 
  • Space Group: C 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 52.555α = 90.00
b = 105.805β = 90.00
c = 41.204γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
REFMACrefinement
DENZOdata reduction
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-11-30
    Type: Initial release
  • Version 1.1: 2008-04-26
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance