2EKT image
Deposition Date 2007-03-25
Release Date 2007-08-14
Last Version Date 2023-10-25
Entry Detail
PDB ID:
2EKT
Title:
Crystal structure of myoglobin reconstituted with 6-methyl-6-depropionatehemin
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
1.10 Å
R-Value Free:
0.15
R-Value Observed:
0.13
Space Group:
P 6
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Myoglobin
Gene (Uniprot):MB
Chain IDs:A
Chain Length:153
Number of Molecules:1
Biological Source:Physeter catodon
Primary Citation
Structure and ligand binding properties of myoglobins reconstituted with monodepropionated heme: functional role of each heme propionate side chain
Biochemistry 46 9406 9416 (2007)
PMID: 17636874 DOI: 10.1021/bi7007068

Abstact

Two heme propionate side chains, which are attached at the 6 and 7 positions of the heme framework, are linked with Arg45 and Ser92, respectively, in sperm whale myoglobin. To evaluate the role of each propionate, two kinds of one-legged hemins, 6-depropionated and 7-depropionated protohemins, were prepared and inserted into the apomyoglobin to yield two reconstituted proteins. Structural data of the reconstituted myoglobins were obtained via an X-ray crystallographic analysis at a resolution of 1.1-1.4 A and resonance Raman spectroscopy. It was found that the lack of the 6-propionate reduces the number of hydrogen bonds in the distal site and clearly changes the position of the Arg45 residue with the disrupting Arg45-Asp60 interaction. In contrast, the removal of the 7-propionate does not cause a significant structural change in the residues of the distal and proximal sites. However, the resonance Raman studies suggested that the coordination bond strength of the His93-Fe bond for the protein with the 7-depropionated protoheme slightly increases compared to that for the protein with the native heme. The O2 and CO ligand binding studies for the reconstituted proteins with the one-legged hemes provide an important insight into the functional role of each propionate. The lack of the 6-propionate accelerates the O2 dissociation by ca. 3-fold compared to those of the other reconstituted and native proteins. The lack of the 7-propionate enhances the CO affinity by 2-fold compared to that of the protein with the native heme. These results indicate that the 6-propionate clearly contributes to the stabilization of the bound O2, whereas the 7-propionate plays an important role in the regulation of the Fe-His bond.

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