6JWF

Holo form of Pyranose Dehydrogenase PQQ domain from Coprinopsis cinerea

6JWF の概要

• エントリーDOI: 10.2210/pdb6jwf/pdb
• 分子名称: Extracellular PQQ-dependent sugar dehydrogenase, CALCIUM ION, PYRROLOQUINOLINE QUINONE, ... (7 entities in total)
• 機能のキーワード: pyrroloquinoline quinone, sugar dehydrogenase, aa family 12, oxidoreductase
• 由来する生物種: Coprinopsis cinerea (Inky cap fungus)
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 92110.60

構造登録者

Takeda, K.,Ishida, T.,Yoshida, M.,Samejima, M.,Ohno, H.,Igarashi, K.,Nakamura, N. (登録日: 2019-04-20, 公開日: 2019-11-06, 最終更新日: 2024-11-13)

主引用文献

Takeda, K.,Ishida, T.,Yoshida, M.,Samejima, M.,Ohno, H.,Igarashi, K.,Nakamura, N.
Crystal Structure of the Catalytic and CytochromebDomains in a Eukaryotic Pyrroloquinoline Quinone-Dependent Dehydrogenase.
Appl.Environ.Microbiol., 85:-, 2019

PubMed Abstract: Pyrroloquinoline quinone (PQQ) was discovered as a redox cofactor of prokaryotic glucose dehydrogenases in the 1960s, and subsequent studies have demonstrated its importance not only in bacterial systems but also in higher organisms. We have previously reported a novel eukaryotic quinohemoprotein that exhibited PQQ-dependent catalytic activity in a eukaryote. The enzyme, pyranose dehydrogenase (PDH), from the filamentous fungus (PDH) of the Basidiomycete division, is composed of a catalytic PQQ-dependent domain classified as a member of the novel auxiliary activity family 12 (AA12), an AA8 cytochrome domain, and a family 1 carbohydrate-binding module (CBM1), as defined by the Carbohydrate-Active Enzymes (CAZy) database. Here, we present the crystal structures of the AA12 domain in its apo- and holo-forms and the AA8 domain of this enzyme. The crystal structures of the holo-AA12 domain bound to PQQ provide direct evidence that eukaryotes have PQQ-dependent enzymes. The AA12 domain exhibits a six-blade β-propeller fold that is also present in other known PQQ-dependent glucose dehydrogenases in bacteria. A loop structure around the active site and a calcium ion binding site are unique among the known structures of bacterial quinoproteins. The AA8 cytochrome domain has a positively charged area on its molecular surface, which is partly due to the propionate group of the heme interacting with Arg181; this feature differs from the characteristics of cytochrome in the AA8 domain of the fungal cellobiose dehydrogenase and suggests that this difference may affect the pH dependence of electron transfer. Pyrroloquinoline quinone (PQQ) is known as the "third coenzyme" following nicotinamide and flavin. PQQ-dependent enzymes have previously been found only in prokaryotes, and the existence of a eukaryotic PQQ-dependent enzyme was in doubt. In 2014, we found an enzyme in mushrooms that catalyzes the oxidation of various sugars in a PQQ-dependent manner and that was a PQQ-dependent enzyme found in eukaryotes. This paper presents the X-ray crystal structures of this eukaryotic PQQ-dependent quinohemoprotein, which show the active site, and identifies the amino acid residues involved in the binding of the cofactor PQQ. The presented X-ray structures reveal that the AA12 domain is in a binary complex with the coenzyme, clearly proving that PQQ-dependent enzymes exist in eukaryotes as well as prokaryotes. Because no biosynthetic system for PQQ has been reported in eukaryotes, future research on the symbiotic systems is expected.

PubMed: 31604769
DOI: 10.1128/AEM.01692-19

実験手法

X-RAY DIFFRACTION (1.3 Å)