ISDA

Deposition Date 2010-03-06

Release Date 2010-05-12

Last Version Date 2024-02-21

Entry Detail

PDB ID:

3M2D

Keywords:

OXIDOREDUCTASE

Title:

Crystallographic and Single Crystal Spectral Analysis of the Peroxidase Ferryl Intermediate

Biological Source:

Source Organism:

Saccharomyces cerevisiae (Taxon ID: 4932)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.40 Å

R-Value Work:

0.11

Space Group:

P 21 21 21

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cytochrome c peroxidase, mitochondrial
Gene (Uniprot):CCP1
Mutations:N184R
Chain IDs:A
Chain Length:291
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae

UniProt ID:P00431 Pfam ID:PF00141 EC:1.11.1.5

Ligand Molecules

HEM

PO4

Primary Citation

Crystallographic and single-crystal spectral analysis of the peroxidase ferryl intermediate.

Meharenna, Y.T, Doukov, T, Li, H, Soltis, S.M, Poulos, T.L.Show

Biochemistry 49 2984 2986 (2010)

PMID: 20230048 DOI: 10.1021/bi100238r

Abstact

The ferryl [Fe(IV)O] intermediate is important in many heme enzymes, and thus, the precise nature of the Fe(IV)-O bond is critical in understanding enzymatic mechanisms. The 1.40 A crystal structure of cytochrome c peroxidase Compound I has been determined as a function of X-ray dose while the visible spectrum was being monitored. The Fe-O bond increases in length from 1.73 A in the low-X-ray dose structure to 1.90 A in the high-dose structure. The low-dose structure correlates well with an Fe(IV) horizontal lineO bond, while we postulate that the high-dose structure is the cryo-trapped Fe(III)-OH species previously thought to be an Fe(IV)-OH species.

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Primary Citation of related structures