[FeFe] Group C3-hydrogenase Putative

This entry was last updated at: Feb. 9, 2018, 6:15 a.m.

Properties

Group	[FeFe]-hydrogenases
Subgroup	[FeFe] Group C3: Phosphatase-linked
Function	Unconfirmed role. May serve as H₂-sensors in regulatory cascades. Enzyme predicted to transfer H₂-liberated electrons to PAS domain. Associated redox change may modulate activity of associated serine/threonine phosphatase or AAA-type ATPase domains. Members of this class are co-transcribed with fermentative hydrogenases and appear to regulate their transcription.
Activity	H₂-sensing?
Oxygen tolerance	O₂-labile
Localisation	Cytosolic

Distribution

Ecosystem distribution	Gastrointestinal tracts, anoxic soils and sediments
Taxonomic distribution	Widespread in anaerobic bacteria, including Firmicutes, Deltaproteobacteria, and Spirochaete

Genetic Organisation

Organisation 1: Ruminococcus albus (WP_002849014.1):

Organisation 2: Geobacter sulfurreducens (WP_014552161.1):

Architecture

Structures	None
Subunits	1 or 3
Subunit description	Organisation 1: HydS (catalytic subunit with PAS domain), HydP (serine/threonine phosphatase), HydT (thioredoxin) Organisation 2: HydS fusion (catalytic subunit with PAS domain fused to AAA-type ATPase domain)
Catalytic site	[FeFe]-centre
FeS clusters	2 [4Fe4S] clusters

Sequences in this class

NCBI Accession	Organism	Hydrogenase Class	Phylum	Order	Activity (Predicted)	Oxygen Tolerance (Predicted)	Subunits (Predicted)	Metal Centres (Predicted)	Accessory Subunits (Predicted)
AIO18481.1	Mollicutes bacterium HR1	[FeFe] Group C3	Tenericutes	Mollicutes	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_002568890.1	Lachnoclostridium bolteae	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_002849014.1	Ruminococcus albus	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_003499089.1	Lachnoclostridium symbiosum	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_003507891.1	Lachnoclostridium symbiosum	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_004608289.1	Lachnoclostridium scindens	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_004614045.1	Tyzzerella nexilis	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_004629692.1	Ruminiclostridium termitidis	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_005037180.1	Holophaga foetida	[FeFe] Group C3	Acidobacteria	Holophagales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_005659983.1	Dethiosulfovibrio peptidovorans	[FeFe] Group C3	Synergistetes	Synergistales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_005996231.1	Desulfovibrio fructosivorans	[FeFe] Group C3	Deltaproteobacteria	Desulfovibrionales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_006059864.1	Holdemania filiformis	[FeFe] Group C3	Firmicutes	Erysipelotrichales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_006301959.1	Aminomonas paucivorans	[FeFe] Group C3	Synergistetes	Synergistales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_006442325.1	Lachnoclostridium hylemonae	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_006574746.1	Pseudoflavonifractor capillosus	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_006778911.1	Lachnoclostridium hathewayi	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_006874783.1	Anaerotruncus colihominis	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_007290221.1	Thermosinus carboxydivorans	[FeFe] Group C3	Firmicutes	Selenomonadales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_007715934.1	Lachnoclostridium asparagiforme	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_007863168.1	Lachnoclostridium citroniae	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_009137123.1	Odoribacter laneus	[FeFe] Group C3	Bacteroidetes	Bacteroidales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_010250208.1	Acetivibrio cellulolyticus	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_011341577.1	Pelobacter carbinolicus	[FeFe] Group C3	Deltaproteobacteria	Desulfuromonadales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_011698701.1	Syntrophobacter fumaroxidans	[FeFe] Group C3	Deltaproteobacteria	Desulfovibrionales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_011993504.1	Fervidobacterium nodosum	[FeFe] Group C3	Thermotogae	Thermotogales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_012003003.1	Thermotoga lettingae	[FeFe] Group C3	Thermotogae	Thermotogales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_012056722.1	Thermosipho melanesiensis	[FeFe] Group C3	Thermotogae	Thermotogales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_013273994.1	Lachnoclostridium saccharolyticum	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_013298247.1	Thermoanaerobacterium thermosaccharolyticum	[FeFe] Group C3	Firmicutes	Thermoanaerobacterales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_013314018.1	Spirochaeta thermophila	[FeFe] Group C3	Spirochaetes	Spirochaetales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_013379523.1	Eubacterium limosum	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_013608542.1	Sphaerochaeta globosa	[FeFe] Group C3	Spirochaetes	Spirochaetales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_013613427.1	Odoribacter splanchnicus	[FeFe] Group C3	Bacteroidetes	Bacteroidales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_013759422.1	Treponema brennaborense	[FeFe] Group C3	Spirochaetes	Spirochaetales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_013778046.1	Tepidanaerobacter acetatoxydans	[FeFe] Group C3	Firmicutes	Thermoanaerobacterales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_013787821.1	Thermoanaerobacterium xylanolyticum	[FeFe] Group C3	Firmicutes	Thermoanaerobacterales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_013931431.1	Thermotoga thermarum	[FeFe] Group C3	Thermotogae	Thermotogales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
AEM79842.1	Thermoanaerobacter wiegelii	[FeFe] Group C3	Firmicutes	Thermoanaerobacterales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_014270717.1	Sphaerochaeta pleomorpha	[FeFe] Group C3	Spirochaetes	Spirochaetales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_014451413.1	Fervidobacterium pennivorans	[FeFe] Group C3	Thermotogae	Thermotogales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_014758428.1	Thermoanaerobacterium saccharolyticum	[FeFe] Group C3	Firmicutes	Thermoanaerobacterales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_015359537.1	Ruminiclostridium stercorarium	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_015513468.1	Coprococcus catus	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_015707141.1	Treponema primitia	[FeFe] Group C3	Spirochaetes	Spirochaetales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_015710039.1	Treponema azotonutricium	[FeFe] Group C3	Spirochaetes	Spirochaetales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_015724298.1	Desulfobulbus propionicus	[FeFe] Group C3	Deltaproteobacteria	Desulfobacterales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_015919563.1	Thermotoga neapolitana	[FeFe] Group C3	Thermotogae	Thermotogales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_015925729.1	Clostridium cellulolyticum	[FeFe] Group C3	Firmicutes	Clostridiales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_018338305.1	Butyricimonas synergistica	[FeFe] Group C3	Bacteroidetes	Bacteroidales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin
WP_018526489.1	Spirochaeta alkalica	[FeFe] Group C3	Spirochaetes	Spirochaetales	Sensory	Labile	3	[FeFe]-centre, 2 x [4Fe4S] clusters, PAS domain	Phosphatase, thioredoxin

Literature

Genetics:

Calusinska, M., Happe, T., Joris, B., and Wilmotte, A. (2010) The surprising diversity of clostridial hydrogenases: a comparative genomic perspective. Microbiol. 156: 1575-1588.
Greening, C., Biswas, A., Carere, C.R., Jackson, C.J., Taylor, M.C., Stott, M.B., Cook, G.M., and Morales, S.E. (2016) Genomic and metagenomic surveys of hydrogenase distribution indicate H₂ is a widely utilised energy source for microbial growth and survival. ISME J. 10: 761-777.
Poudel, S., Tokmina-Lukaszewska, M., Colman, D.R., Refai, M., Schut, G.J., King, P.W., Maness, P.C., Adams, M.W., Peters, J.W., Bothner, B., and Boyd, E.S. (2016) Unification of [FeFe]-hydrogenases into three structural and functional groups. BBA Gen. Subj. 1860: 1910-1921.
Wolf, P.G., Biswas, A., Morales, S.E., Greening, C., and Gaskins, H.R. (2016) H₂ metabolism is widespread and diverse among human colonic microbes. Gut Microb. 7: 235-245.
Søndergaard, D., Petersen, C.N.S., and Greening, C. (2017) HydDB: a web tool for hydrogenase classification and analysis. Sci. Rep. 6: 34212.
Zheng, Y., Kahnt, J., Kwon, I.H., Mackie, R.I., and Thauer, R.K. (2014) Hydrogen formation and its regulation in Ruminococcus albus: involvement of an electron-bifurcating [FeFe]-hydrogenase, of a non-electron-bifurcating [FeFe]-hydrogenase, and of a putative hydrogen-sensing [FeFe]-hydrogenase. J. Bacteriol. 196: 3840-3852.

Physiology:

Shaw, A.J., Hogsett, D.A., and Lynd, L.R. (2009) Identification of the [FeFe]-hydrogenase responsible for hydrogen generation in Thermoanaerobacterium saccharolyticum and demonstration of increased ethanol yield via hydrogenase knockout. J. Bacteriol. 191: 6457-6464.

Biochemistry:

Chongdar, N., Birrell, J.A., Pawlak, K., Sommer, C., Reijerse, E.J., Rüdiger, O., Lubitz, W., and Ogata, H. (2018). Unique spectroscopic properties of the H-cluster in a putative sensory [FeFe] hydrogenase. J. Am. Chem. Soc. 140: 1057-1068.