4HM2 image
Entry Detail
PDB ID:
4HM2
Title:
Naphthalene 1,2-Dioxygenase bound to ethylphenylsulfide
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2012-10-17
Release Date:
2013-10-30
Method Details:
Experimental Method:
Resolution:
1.60 Å
R-Value Free:
0.18
R-Value Work:
0.14
R-Value Observed:
0.14
Space Group:
H 3 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Naphthalene 1,2-dioxygenase subunit alpha
Chain IDs:A
Chain Length:449
Number of Molecules:1
Biological Source:Pseudomonas sp. C18
Polymer Type:polypeptide(L)
Description:Naphthalene 1,2-dioxygenase subunit beta
Chain IDs:B
Chain Length:194
Number of Molecules:1
Biological Source:Pseudomonas sp. C18
Primary Citation
One enzyme, many reactions: structural basis for the various reactions catalyzed by naphthalene 1,2-dioxygenase.
Iucrj 4 648 656 (2017)
PMID: 28989720 DOI: 10.1107/S2052252517008223

Abstact

Rieske nonheme iron oxygenases (ROs) are a well studied class of enzymes. Naphthalene 1,2-dioxygenase (NDO) is used as a model to study ROs. Previous work has shown how side-on binding of oxygen to the mononuclear iron provides this enzyme with the ability to catalyze stereospecific and regiospecific cis-dihydroxylation reactions. It has been well documented that ROs catalyze a variety of other reactions, including mono-oxygenation, desaturation, O- and N-dealkylation, sulfoxidation etc. NDO itself catalyzes a variety of these reactions. Structures of NDO in complex with a number of different substrates show that the orientation of the substrate in the active site controls not only the regiospecificity and stereospecificity, but also the type of reaction catalyzed. It is proposed that the mononuclear iron-activated dioxygen attacks the atoms of the substrate that are most proximal to it. The promiscuity of delivering two products (apparently by two different reactions) from the same substrate can be explained by the possible binding of the substrate in slightly different orientations aided by the observed flexibility of residues in the binding pocket.

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Primary Citation of related structures