2BLH

Ligand Migration and Protein Fluctuations in Myoglobin Mutant L29W


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.77 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.186 
  • R-Value Observed: 0.186 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Ligand Migration and Protein Fluctuations in Myoglobin Mutant L29W

Nienhaus, K.Ostermann, A.Nienhaus, G.U.Parak, F.G.Schmidt, M.

(2005) Biochemistry 44: 5095

  • DOI: https://doi.org/10.1021/bi047513t
  • Primary Citation of Related Structures:  
    2BLH, 2BLI, 2BLJ

  • PubMed Abstract: 

    We have determined eight X-ray structures of myoglobin mutant L29W at various experimental conditions. In addition, infrared spectroscopic experiments are presented, which are discussed in the light of the X-ray structures. Two distinct conformations of the CO-ligated protein were identified, giving rise to two stretching bands of heme-bound CO. If L29W MbCO crystals are illuminated around 180 K, a deoxy species is formed. The CO molecules migrate to the proximal side of the heme and remain trapped in the so-called Xe1 cavity upon temperature decrease to 105 K. The structure of this photoproduct is almost identical to the equilibrium high-temperature deoxy Mb structure. If the temperature is cycled to increasingly higher values, CO recombination is observed. Three intermediate structures have been determined during the rebinding process. Efficient recombination occurs only above 180 K, the characteristic temperature for the onset of protein dynamics. Rebinding is remarkably slow because bulky residues His64 and Trp29 block important migration pathways of the CO molecule.


  • Organizational Affiliation

    Department of Biophysics, University of Ulm, Albert-Einstein-Allee 11, 89081 Ulm, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
MYOGLOBIN153Physeter catodonMutation(s): 1 
UniProt
Find proteins for P02185 (Physeter macrocephalus)
Explore P02185 
Go to UniProtKB:  P02185
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP02185
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

Download Ideal Coordinates CCD File 
B [auth A]PROTOPORPHYRIN IX CONTAINING FE
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.77 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.186 
  • R-Value Observed: 0.186 
  • Space Group: P 6
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 92.42α = 90
b = 92.42β = 90
c = 46.79γ = 120
Software Package:
Software NamePurpose
CNSrefinement
SAINTdata reduction
SAINTdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-04-06
    Type: Initial release
  • Version 1.1: 2014-12-10
    Changes: Data collection, Derived calculations, Non-polymer description, Other, Refinement description, Structure summary, Version format compliance
  • Version 1.2: 2017-06-28
    Changes: Data collection