[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	None
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_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_016875640.1	Chlorogloeopsis fritschii	[NiFe] Group 2a	Cyanobacteria	Stigonematales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_016860569.1	Fischerella muscicola	[NiFe] Group 2a	Cyanobacteria	Stigonematales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_026722320.1	Fischerella sp. PCC 9431	[NiFe] Group 2a	Cyanobacteria	Stigonematales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_026731079.1	Fischerella sp. PCC 9605	[NiFe] Group 2a	Cyanobacteria	Stigonematales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_017315132.1	Mastigocladopsis repens	[NiFe] Group 2a	Cyanobacteria	Stigonematales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_027846705.1	Mastigocoleus testarum	[NiFe] Group 2a	Cyanobacteria	Stigonematales	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_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_013896580.1	Mesorhizobium opportunistum	[NiFe] Group 2a	Alphaproteobacteria	Rhizobiales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_026607801.1	Methylocapsa acidiphila	[NiFe] Group 2a	Alphaproteobacteria	Rhizobiales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_012592713.1	Methylocella silvestris	[NiFe] Group 2a	Alphaproteobacteria	Rhizobiales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_020176873.1	Methyloferula stellata	[NiFe] Group 2a	Alphaproteobacteria	Rhizobiales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_023069054.1	Lyngbya aestuarii	[NiFe] Group 2a	Cyanobacteria	Oscillatoriales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_009782476.1	Lyngbya sp. PCC 8106	[NiFe] Group 2a	Cyanobacteria	Oscillatoriales	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_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_015079360.1	Anabaena sp. 90	[NiFe] Group 2a	Cyanobacteria	Nostocales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_011321261.1	Anabaena variabilis	[NiFe] Group 2a	Cyanobacteria	Nostocales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_026092924.1	Calothrix sp. PCC 7103	[NiFe] Group 2a	Cyanobacteria	Nostocales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_006278427.1	Cylindrospermopsis raciborskii	[NiFe] Group 2a	Cyanobacteria	Nostocales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_017656008.1	Microchaete sp. PCC 7126	[NiFe] Group 2a	Cyanobacteria	Nostocales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_006194531.1	Nodularia spumigena	[NiFe] Group 2a	Cyanobacteria	Nostocales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_012407177.1	Nostoc punctiforme	[NiFe] Group 2a	Cyanobacteria	Nostocales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
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_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_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_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_053379275.1	Nitrospira moscoviensis	[NiFe] Group 2a	Nitrospirae	Nitrospirales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_012681902.1	Gemmatimonas aurantiaca	[NiFe] Group 2a	Gemmatimonadetes	Gemmatimonadales	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
WP_009185102.1	Cecembia lonarensis	[NiFe] Group 2a	Bacteroidetes	Cytophagales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_015029646.1	Emticicia oligotrophica	[NiFe] Group 2a	Bacteroidetes	Cytophagales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_026993787.1	Flectobacillus major	[NiFe] Group 2a	Bacteroidetes	Cytophagales	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_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_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_007308441.1	Crocosphaera watsonii	[NiFe] Group 2a	Cyanobacteria	Chroococcales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_012361536.1	Cyanothece sp. ATCC 51142	[NiFe] Group 2a	Cyanobacteria	Chroococcales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_008275259.1	Cyanothece sp. CCY0110	[NiFe] Group 2a	Cyanobacteria	Chroococcales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_012599193.1	Cyanothece sp. PCC 7424	[NiFe] Group 2a	Cyanobacteria	Chroococcales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_013321766.1	Cyanothece sp. PCC 7822	[NiFe] Group 2a	Cyanobacteria	Chroococcales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_012615778.1	Chloroflexus aggregans	[NiFe] Group 2a	Chloroflexi	Chloroflexales	Aerobic Uptake	Tolerant	5	[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] cluster	[FeS] protein, hypothetical proteins
WP_028460308.1	Chloroflexus sp. Y-396-1	[NiFe] Group 2a	Chloroflexi	Chloroflexales	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.