Structure and Function of Cyanobacterial Photosystem I

Krauß, Norbert

doi:10.1002/9783527623464.ch2

Cited by 3 publications

(1 citation statement)

References 175 publications

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“…The best potential hits were modeled using the SWISS-MODEL homology modeler 123 to check for veracity. Since the core subunits of Type 1 RC proteins are predicted to have 11 transmembrane a-helices 124,125 , while type 2 RC are known to contain five transmembrane helices 124,126 , we also searched for all predicted proteins harboring either 5 or 11 transmembrane domains using TMHMM 127 . All identified 5-or 11-helix-containing protein-coding sequences were searched against GenBank protein nr database to identify and exclude all sequences with a predicted function.…”

Section: Search For Photosynthetic Reaction Center Identification Ofmentioning

confidence: 99%

Methylotrophy, alkane-degradation, and pigment production as defining features of the globally distributed yet-uncultured phylum Binatota

Murphy

Dunfield

Sheremet

et al. 2020

Preprint

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The recent leveraging of genome-resolved metagenomics has opened a treasure trove of genomes from novel uncultured microbial lineages, yet left many clades undescribed. We here present a global analysis of genomes belonging to the Binatota (UBP10), a globally distributed, yet-uncharacterized bacterial phylum. All orders in the Binatota encoded the capacity for aerobic methylotrophy using methanol, methylamine, sulfomethanes, chloromethanes, and potentially methane as substrates. Methylotrophy in the Binatota was characterized by order-specific substrate degradation preferences, as well as extensive metabolic versatility, i.e. the utilization of diverse sets of genes, pathways and combinations to achieve a specific metabolic goal. The genomes also encoded an arsenal of alkane hydroxylases and monooxygenases, potentially enabling growth on a wide range of alkanes and fatty acids. Pigmentation is inferred from a complete pathway for carotenoids (lycopene, beta and gamma carotenes, xanthins, chlorobactenes, and spheroidenes) production. Further, the majority of genes involved in bacteriochlorophyll a, c, and d biosynthesis were identified, although absence of key genes and failure to identify a photosynthetic reaction center precludes proposing phototrophic capacities. Analysis of 16S rRNA databases showed Binatota preference to terrestrial and freshwater ecosystems, hydrocarbon-rich habitats, and sponges supporting their suggested potential role in mitigating methanol and methane emissions, alkanes degradation, and nutritional symbiosis with sponges. Our results expand the lists of methylotrophic, aerobic alkane degrading, and pigment-producing lineages. We also highlight the consistent encountering of incomplete biosynthetic pathways and gene shrapnel in microbial genomes, a phenomenon necessitating careful assessment when assigning putative functions based on a set-threshold of pathway completion.

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Section: Search For Photosynthetic Reaction Center Identification Ofmentioning

confidence: 99%

Methylotrophy, alkane-degradation, and pigment production as defining features of the globally distributed yet-uncultured phylum Binatota

Murphy

Dunfield

Sheremet

et al. 2020

Preprint

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Lipids in the Structure of Photosystem I, Photosystem II and the Cytochrome b 6 f Complex

Kern

Zouni

Guskov

et al. 2009

Advances in Photosynthesis and Respiration

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Structures of proteins and cofactors: X-ray crystallography

2009

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Protein crystallography is the predominately used technique for the determination of the three-dimensional structures of proteins and other macromolecules. In this article, the methodology utilized for the measurement and analysis of the diffraction data from crystals is briefly reviewed. As examples of both the usefulness and difficulties of this technique, the determination of the structures of several photosynthetic pigment-protein complexes is described, namely, the reaction center from purple bacteria, photosystem I and photosystem II from cyanobacteria, the light-harvesting complex II from purple bacteria, and the FMO protein from green bacteria.

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Structure and Function of Cyanobacterial Photosystem I

Cited by 3 publications

References 175 publications

Methylotrophy, alkane-degradation, and pigment production as defining features of the globally distributed yet-uncultured phylum Binatota

Methylotrophy, alkane-degradation, and pigment production as defining features of the globally distributed yet-uncultured phylum Binatota

Lipids in the Structure of Photosystem I, Photosystem II and the Cytochrome b 6 f Complex

Structures of proteins and cofactors: X-ray crystallography

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