Short-chain dehydrogenases/reductases in cyanobacteria

Kramm, A., Kisiela, M., Schulz, Rüdiger and Maser, Edmund (2012) Short-chain dehydrogenases/reductases in cyanobacteria Febs Journal, 279 (6). pp. 1030-1043.

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Abstract

The short-chain dehydrogenases/reductases (SDRs) represent a large superfamily of enzymes, most of which are NAD(H)-dependent or NADP(H)-dependent oxidoreductases. They display a wide substrate spectrum, including steroids, alcohols, sugars, aromatic compounds, and xenobiotics. On the basis of characteristic sequence motifs, the SDRs are subdivided into two main (classical and extended) and three smaller (divergent, intermediate, and complex) families. Despite low residue identities in pairwise comparisons, the three-dimensional structure among the SDRs is conserved and shows a typical Rossmann fold. Here, we used a bioinformatics approach to determine whether and which SDRs are present in cyanobacteria, microorganisms that played an important role in our ecosystem as the first oxygen producers. Cyanobacterial SDRs could indeed be identified, and were clustered according to the SDR classification system. Furthermore, because of the early availability of its genome sequence and the easy application of transformation methods, Synechocystis sp. PCC 6803, one of the most important cyanobacterial strains, was chosen as the model organism for this phylum. Synechocystis sp. SDRs were further analysed with bioinformatics tools, such as hidden Markov models (HMMs). It became evident that several cyanobacterial SDRs show remarkable sequence identities with SDRs in other organisms. These so-called homologous proteins exist in plants, model organisms such as Drosophila melanogaster and Caenorhabditis elegans, and even in humans. As sequence identities of up to 60% were found between Synechocystis and humans, it was concluded that SDRs seemed to have been well conserved during evolution, even after dramatic terrestrial changes such as the conversion of the early reducing atmosphere to an oxidizing one by cyanobacteria.

Document Type: Article
Additional Information: Univ Med Sch, Inst Toxicol & Pharmacol Nat Scientists, Schleswig Holstein, Germany. Univ Kiel, Bot Inst & Bot Garden, Schleswig Holstein, Germany. Maser, E (reprint author), Brunswiker Str 10, D-24105 Kiel, Germany. maser@toxi.uni-kiel.de
Keywords: bioinformatics approach cyanobacteria hidden Markov model short-chain dehydrogenases reductases (SDRs) Synechocystis human 17-beta-hydroxysteroid dehydrogenases protein families oxygenic photosynthesis superfamily sequence genome nomenclature reductase database enzymes
Research affiliation: OceanRep > The Future Ocean - Cluster of Excellence
Kiel University
UNSPECIFIED
Kiel University > Kiel Marine Science
Refereed: Yes
ISSN: 1742-464X
Projects: Future Ocean
Date Deposited: 14 May 2014 09:53
Last Modified: 14 May 2014 09:53
URI: http://eprints.uni-kiel.de/id/eprint/24073

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