[NiFe] Group 2a-hydrogenase
This entry was last updated at: Feb. 9, 2018, 6:36 a.m.
Properties
| Group | [NiFe] Group 2: Alternative and sensory H2-uptake [NiFe] hydrogenases |
| Subgroup | [NiFe] Group 2a: Cyanobacteria-type |
| Function | Hydrogenotrophic respiration using O2 as the terminal electron acceptor. Important for recycling of H2 produced by nitrogenase and fermentation. Route of electron transfer unresolved. |
| Activity | H2-uptake (unidirectional, some high-affinity) |
| Oxygen tolerance | Some O2-tolerant |
| Localisation | Membrane-associated? |
Distribution
| Ecosystem distribution | Diverse soil and aquatic environments |
| Taxonomic distribution | Widespread among Cyanobacteria and aerobic soil bacteria (e.g. Actinobacteria) |
Genetic Organisation
e.g. Mycobacterium smegmatis (WP_003893634.1):
Architecture
| Structures |
|
| Subunits | 3? |
| Subunit description | None |
| Catalytic site | [NiFe]-centre |
| FeS clusters | Proximal: 3Cys1Asn[4Fe4S] Medial: 3Cys[3Fe4S] Distal: 3Cys1Glu[4Fe4S] |
Sequences in this class
| NCBI Accession | Organism | Hydrogenase Class | Phylum | Order | Activity (Predicted) | Oxygen Tolerance (Predicted) | Subunits (Predicted) | Metal Centres (Predicted) | Accessory Subunits (Predicted) |
|---|---|---|---|---|---|---|---|---|---|
| WP_015115410.1 | Nostoc sp. PCC 7107 | [NiFe] Group 2a | Cyanobacteria | Nostocales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_010994852.1 | Nostoc sp. PCC 7120 | [NiFe] Group 2a | Cyanobacteria | Nostocales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_015137522.1 | Nostoc sp. PCC 7524 | [NiFe] Group 2a | Cyanobacteria | Nostocales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_007015744.1 | Novosphingobium pentaromativorans | [NiFe] Group 2a | Alphaproteobacteria | Sphingomonadales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_017716714.1 | Oscillatoria sp. PCC 10802 | [NiFe] Group 2a | Cyanobacteria | Oscillatoriales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_028931752.1 | Pseudonocardia asaccharolytica | [NiFe] Group 2a | Actinobacteria | Actinomycetales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_013678342.1 | Pseudonocardia dioxanivorans | [NiFe] Group 2a | Actinobacteria | Actinomycetales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_008235596.1 | Richelia intracellularis | [NiFe] Group 2a | Cyanobacteria | Nostocales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_015122102.1 | Rivularia sp. PCC 7116 | [NiFe] Group 2a | Cyanobacteria | Nostocales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_012122267.1 | Roseiflexus castenholzii | [NiFe] Group 2a | Chloroflexi | Chloroflexales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_028526813.1 | Runella limosa | [NiFe] Group 2a | Bacteroidetes | Cytophagales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_013921615.1 | Runella slithyformis | [NiFe] Group 2a | Bacteroidetes | Cytophagales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_028664870.1 | Runella zeae | [NiFe] Group 2a | Bacteroidetes | Cytophagales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_017747426.1 | Scytonema hofmanni | [NiFe] Group 2a | Cyanobacteria | Nostocales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_017747421.1 | Scytonema hofmanni | [NiFe] Group 2a | Cyanobacteria | Nostocales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_011536525.1 | Sphingopyxis alaskensis | [NiFe] Group 2a | Alphaproteobacteria | Sphingomonadales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_012928387.1 | Spirosoma linguale | [NiFe] Group 2a | Bacteroidetes | Cytophagales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_005476263.1 | Streptomyces bottropensis | [NiFe] Group 2a | Actinobacteria | Actinomycetales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_013987182.1 | Sulfobacillus acidophilus | [NiFe] Group 2a | Firmicutes | Clostridiales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_028986316.1 | Thermicanus aegyptius | [NiFe] Group 2a | Firmicutes | Bacillales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_013133447.1 | Thermobispora bispora | [NiFe] Group 2a | Actinobacteria | Actinomycetales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_012992443.1 | Thermocrinis albus | [NiFe] Group 2a | Aquificae | Aquificales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_014511332.1 | Thermus thermophilus | [NiFe] Group 2a | Deinococcus-Thermus | Thermales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_011612815.1 | Trichodesmium erythraeum | [NiFe] Group 2a | Cyanobacteria | Oscillatoriales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_013192388.1 | Trichormus azollae | [NiFe] Group 2a | Cyanobacteria | Nostocales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
| WP_013993526.1 | Zobellia galactanivorans | [NiFe] Group 2a | Bacteroidetes | Flavobacteriales | Aerobic Uptake | Tolerant | 5 | [NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster | [FeS] protein, hypothetical proteins |
Literature
Genetics:
- Axelsson, R., Oxelfelt, F., and Lindblad, P. (1999) Transcriptional regulation of Nostoc uptake hydrogenase. FEMS Microbiol. Lett. 170: 77-81.
- Berney, M., Greening, C., Hards, K., Collins, D., and Cook, G.M. (2014) Three different [NiFe] hydrogenases confer metabolic flexibility in the obligate aerobe Mycobacterium smegmatis. Environ. Microbiol. 16: 318-330.
- Boison, G., Bothe, H., and Schmitz, O. (2000) Transcriptional analysis of hydrogenase genes in the cyanobacteria Anacystis nidulans and Anabaena variabilis monitored by RT-PCR. Curr. Microbiol. 40: 315-321.
- Happe, T., Schütz, K., and Böhme, H. (2000) Transcriptional and mutational analysis of the uptake hydrogenase of the filamentous cyanobacterium Anabaena variabilis ATCC 29413. J. Bacteriol. 182: 1624-1631.
- Oliveira, P., Leitão, E., Tamagnini, P, Moradas-Ferreira, P., and Oxelfelt, F. (2004) Characterization and transcriptional analysis of hupSLW in Gloeothece sp. ATCC 27152: an uptake hydrogenase from a unicellular cyanobacterium. Microbiol. 150: 3647-3655.
- Tamagnini, P., Costa, J.-L., Almeida, L., Oliveira, M.-J., Salema, R., and Lindblad, P. (2000) Diversity of cyanobacterial hydrogenases, a molecular approach. Curr. Microbiol. 40: 356-361.
- Tel-Or, E., Luijk, L.W., and Packer, L. (1977) An inducible hydrogenase in cyanobacteria enhances N2 fixation. FEBS Lett. 78: 49-52.
- Vignais, P.M., Billoud, B., and Meyer, J. (2001) Classification and phylogeny of hydrogenases. FEMS Microbiol. Rev. 25: 455-501.
Physiology:
- Berney, M., Greening, C., Conrad, R., Jacobs, W.R., and Cook, G.M. (2014) An obligately aerobic soil bacterium activates fermentative hydrogen production to survive reductive stress during hypoxia. Proc. Natl. Acad. Sci. U. S. A. 111: 11479-11484.
- Grostern, A. and Alvarez-Cohen, L. (2013) RubisCO-based CO2 fixation and C1 metabolism in the actinobacterium Pseudonocardia dioxanivorans CB1190. Environ. Microbiol. 15: 3040-3053.
- Greening, C., Berney, M., Hards, K., Cook, G.M., and Conrad, R. (2014) A soil actinobacterium scavenges atmospheric H2 using two membrane-associated, oxygen-dependent [NiFe] hydrogenases. Proc. Natl. Acad. Sci. U. S. A. 111: 4257-61.
- Hedrich, S. and Johnson, D.B. (2013) Aerobic and anaerobic oxidation of hydrogen by acidophilic bacteria. FEMS Microbiol. Lett. 349: 40-45.
- Houchins, J.P. and Burris, R.H. (1981) Occurrence and localization of two distinct hydrogenases in the heterocystous cyanobacterium Anabaena sp. strain 7120. J. Bacteriol. 146: 209-214.
- Koch et al. (2014) Growth of nitrite-oxidizing bacteria by aerobic hydrogen oxidation. Science 345: 1052-1054.
- Lindberg, P., Schütz, K., Happe, T., and Lindblad, P. (2002) A hydrogen-producing, hydrogenase-free mutant strain of Nostoc punctiforme ATCC 29133. Int. J. Hydrogen Energy 27: 1291-1296.
- Masukawa, H., Mochimaru, M., and Sakurai, H. (2002) Disruption of the uptake hydrogenase gene, but not of the bidirectional hydrogenase gene, leads to enhanced photobiological hydrogen production by the nitrogen-fixing cyanobacterium Anabaena sp. PCC 7120. Appl. Microbiol. Biotechnol. 58: 618-624.
- Mori, J.F., Scott, J.J., Hager, K.W., Moyer, C.L., Küsel, K., and Emerson, D. (2017) Physiological and ecological implications of an iron-or hydrogen-oxidizing member of the Zetaproteobacteria, Ghiorsea bivora, gen. nov., sp. nov. ISME J. 11: 2624-2636.
- Ohmura, N., Sasaki, K., Matsumoto, N. and Saiki, H. (2002) Anaerobic respiration using Fe3+, S0, and H2 in the chemolithoautotrophic bacterium Acidithiobacillus ferrooxidans. J. Bacteriol. 184: 2081-2087.
- Papen, H., Kentemich, T., Schmülling, T., and Bothe, H. (1986) Hydrogenase activities in cyanobacteria. Biochimie 68: 121-132.
- Shima, S. and Suzuki, K. (1993) Hydrogenobacter acidophilus sp. nov., a thermoacidophilic, aerobic, hydrogen-oxidizing bacterium requiring elemental sulfur for growth. Int. J. Syst. Bacteriol. 43: 703-708.
Biochemistry:
- Kumazawa, S. and Mitsui, A. (1985) Comparative amperometric study of uptake hydrogenase and hydrogen photoproduction between heterocystous cyanobacterium Anabaena cylindrica B629 and nonheterocystous cyanobacterium Oscillatoria sp. strain Miami BG7. Appl. Environ. Microbiol. 50: 287-291.
- Raleiras, P., Kellers, P., Lindblad, P., Styring, S. and Magnuson, A. (2013) Isolation and characterization of the small subunit of the uptake hydrogenase from the cyanobacterium Nostoc punctiforme. J. Biol. Chem. 288: 18345-18352.
- Raleiras, P., Khanna, N., Miranda, H., Mészáros, L.S., Krassen, H., Ho, F., Battchikova, N., Aro, E.M., Magnuson, A., Lindblad, P., and Styring, S (2016) Turning around the electron flow in an uptake hydrogenase. EPR spectroscopy and in vivo activity of a designed mutant in HupSL from Nostoc punctiforme. Energy Environ. Sci. 9: 581-594.
Chemistry:
- Bleijlevens, B., Jongh, T.E., Chen, Z., Li, T., Fischer, J.R., Förster, J., Friedrich, C.G., Bagley, K.A., Albracht, S.P., and Lubitz, W. (2007) Characterization of a cyanobacterial-like uptake [NiFe]- hydrogenase: EPR and FTIR spectroscopic studies of the enzyme from Acidithiobacillus ferrooxidans. J. Biol. Inorg. Chem. 12: 212-233.