1MYT

CRYSTAL STRUCTURE TO 1.74 ANGSTROMS RESOLUTION OF METMYOGLOBIN FROM YELLOWFIN TUNA (THUNNUS ALBACARES): AN EXAMPLE OF A MYOGLOBIN LACKING THE D HELIX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.74 Å

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

1.70 A resolution structure of myoglobin from yellowfin tuna. An example of a myoglobin lacking the D helix.

Birnbaum, G.I.Evans, S.V.Przybylska, M.Rose, D.R.

(1994) Acta Crystallogr.,Sect.D 50: 283-289

  • DOI: 10.1107/S0907444993014271

  • PubMed Abstract: 
  • The crystal structure of metmyoglobin from yellowfin tuna (Thunnus albacares) has been determined by molecular replacement methods and refined to a conventional R factor of 0.177 for all observed reflections in the range of 6.0-1.70 A resolution. Lik ...

    The crystal structure of metmyoglobin from yellowfin tuna (Thunnus albacares) has been determined by molecular replacement methods and refined to a conventional R factor of 0.177 for all observed reflections in the range of 6.0-1.70 A resolution. Like other myoglobins for which a high-resolution structure is available, the polypeptide chain is organized into several helices that cooperate to form a hydrophobic pocket into which the heme prosthetic group is non-covalently bound; however, the D helix observed in other myoglobins is absent in myoglobin from yellowfin tuna and has been replaced with a random coil. As well, the A helix has a pronounced kink due to the presence of Pro16. The differences in structure between this and sperm whale myoglobin can be correlated with their reported dioxygen affinity and dissociation. The structure is in agreement with reported fluorescence data which show an increased Trp14.heme distance in yellowfin tuna compared to sperm whale myoglobin.


    Related Citations: 
    • Structure of Yellow Fin Tuna Metmyoglobin at 6 Angstroms Resolution
      Lattman, E.E.,Nockolds, C.E.,Kretsinger, R.H.,Love, W.E.
      (1971) J.Mol.Biol. 60: 271


    Organizational Affiliation

    Institute for Biological Sciences, National Research Council of Canada, Ottawa.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MYOGLOBIN
A
146Thunnus albacaresMutation(s): 0 
Gene Names: mb
Find proteins for P02205 (Thunnus albacares)
Go to UniProtKB:  P02205
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
HEM
Query on HEM

Download SDF File 
Download CCD File 
A
PROTOPORPHYRIN IX CONTAINING FE
HEME
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.74 Å
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 44.497α = 90.00
b = 72.318β = 90.00
c = 52.221γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1993-10-31
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance