The DOI matches its Crossref record; 46 of the 46 references it cites were found in a registry or an index.
HydDB: A web tool for hydrogenase classification and analysis
Open accessAbstract
H 2 metabolism is proposed to be the most ancient and diverse mechanism of energy-conservation. The metalloenzymes mediating this metabolism, hydrogenases, are encoded by over 60 microbial phyla and are present in all major ecosystems. We developed a classification system and web tool, HydDB, for the structural and functional analysis of these enzymes. We show that hydrogenase function can be predicted by primary sequence alone using an expanded classification scheme (comprising 29 [NiFe], 8 [FeFe] and 1 [Fe] hydrogenase classes) that defines 11 new classes with distinct biological functions. Using this scheme, we built a web tool that rapidly and reliably classifies hydrogenase primary sequences using a combination of k -nearest neighbors’ algorithms and CDD referencing. Demonstrating its capacity, the tool reliably predicted hydrogenase content and function in 12 newly-sequenced bacteria, archaea and eukaryotes. HydDB provides the capacity to browse the amino acid sequences of 3248 annotated hydrogenase catalytic subunits and also contains a detailed repository of physiological, biochemical and structural information about the 38 hydrogenase classes defined here. The database and classifier are freely and publicly available at http://services.birc.au.dk/hyddb/
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Isolation of an archaeon at the prokaryote–eukaryote interface
Imachi, H., Nobu, M. K., Nakahara, N., Morono, Y., Ogawara, M., Takaki, Y., Takano, Y., Uematsu, K., Ikuta, T., Ito, M., et al. (2020) · Nature · doi:10.1038/s41586-019-1916-6 · Cited by 624
Metabolic Hydrogen Flows in Rumen Fermentation: Principles and Possibilities of Interventions
Ungerfeld, E. M. (2020) · Frontiers in Microbiology · doi:10.3389/fmicb.2020.00589 · Cited by 472
Eichorst, S. A., Trojan, D., Roux, S., Herbold, C., Rattei, T., & Woebken, D. (2018) · Environmental Microbiology · doi:10.1111/1462-2920.14043 · Cited by 359
Buckel, W., & Thauer, R. K. (2018) · Frontiers in Microbiology · doi:10.3389/fmicb.2018.00401 · Cited by 328
Spang, A., Stairs, C. W., Dombrowski, N., Eme, L., Lombard, J., Caceres, E. F., Greening, C., Baker, B. J., & Ettema, T. J. G. (2019) · Nature Microbiology · doi:10.1038/s41564-019-0406-9 · Cited by 200
Self-citation
Metadata
- Authors
- Søndergaard, D., Pedersen, C. N. S., & Greening, C.
- Venue
- Scientific Reports
- Published
- 2016-09-27
- Volume
- 6
- Issue
- 1
- Pages
- 34212-34212
- ISSN
- 2045-2322 (ISSN-L)
- OpenAlex
- W2952514227
- Cited by
- 538
- References
- 46
- FWCI
- 6.44
- Type
- journal article
- Language
- en
- Open access
- gold
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