[NiFe] Group 1b-hydrogenase

This entry was last updated at: Feb. 9, 2018, 7:09 a.m.

Properties
Group [NiFe] Group 1: Respiratory H2-uptake [NiFe] hydrogenases
Subgroup [NiFe] Group 1b: Prototypical
Function Hydrogenotrophic respiration using sulfate, fumarate, nitrate, metals, and azo compounds as terminal electron acceptors. Enzyme transfers H2-liberated electrons through cytochromes to terminal reductase.
Activity H2-uptake (unidirectional)
Oxygen tolerance O2-sensitive
Localisation Membrane-bound or periplasmic
Distribution
Ecosystem distribution Anoxic soils and sediments, marine waters, animal gastrointestinal tracts
Taxonomic distribution Widespread in Deltaproteobacteria and Epsilonproteobacteria
Genetic Organisation

e.g. Wolinella succinogenes (WP_011139497.1):

Architecture
Structures
  • 4U9H (Desulfovibrio vulgaris, 0.9 Å resolution, reduced)
  • 4U9I (Desulfovibrio vulgaris, 1.1 Å resolution, reduced)
  • 1H2R (Desulfovibrio vulgaris, 1.4 Å resolution, active)
  • 1H2A (Desulfovibrio vulgaris, 1.8 Å resolution, oxidised)
  • 1YRQ (Desulfovibrio fructosovorans, 2.1 Å resolution, oxidised)
  • 4URH (Desulfovibrio fructosovorans, 1.4 Å resolution, oxidised)
  • 1YQW (Desulfovibrio fructosovorans, 1.8 Å resolution, oxidised)
  • 4FRF (Desulfovibrio fructosovorans, 2.7 Å resolution, oxidised)
  • 1YQ9 (Desulfovibrio gigas, 2.4 Å resolution, oxidised)
  • 2FRV (Desulfovibrio gigas, 2.5 Å resolution, oxidised)
  • 1FRV (Desulfovibrio gigas, 2.9 Å resolution, oxidised)
  • 1E3D (Desulfovibrio desulfuricans, 1.8 Å resolution, oxidised)
Subunits 3
Subunit description HynB (hydrogenase large subunit)
HynA (hydrogenase small subunit)
HynC (cytochrome b subunit)
In Deltaproteobacteria, CycA (cytochrome c3 subunit) substitutes for HynC
Catalytic site [NiFe]-centre
FeS clusters Proximal: 4Cys[4Fe4S] or 3Cys1Asn[4Fe4S]
Medial: 3Cys[3Fe4S]
Distal: 3Cys1His[4Fe4S]
Sequences in this class
NCBI AccessionOrganismHydrogenase ClassPhylumOrderActivity (Predicted)Oxygen Tolerance (Predicted)Subunits (Predicted)Metal Centres (Predicted)Accessory Subunits (Predicted)
WP_013344606.1Ferrimonas balearica[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_028110915.1Ferrimonas futtsuensis[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_028112170.1Ferrimonas kyonanensis[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_028115083.1Ferrimonas senticii[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_011759792.1Shewanella amazonensis[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_014620707.1Shewanella baltica[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_028762126.1Shewanella colwelliana[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_023267287.1Shewanella decolorationis[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_028768898.1Shewanella fidelis[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_011637560.1Shewanella frigidimarina[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_012277350.1Shewanella halifaxensis[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_011865562.1Shewanella loihica[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_011072162.1Shewanella oneidensis[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_012155268.1Shewanella pealeana[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_020912731.1Shewanella piezotolerans[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_028760177.1Shewanella putrefaciens[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_012142253.1Shewanella sediminis[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_011622592.1Shewanella sp. MR-4[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_028774221.1Shewanella waksmanii[NiFe] Group 1bGammaproteobacteriaAlteromonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_011371454.1Thiomicrospira crunogena[NiFe] Group 1bGammaproteobacteriaThiotrichalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_005368230.1Photobacterium angustum[NiFe] Group 1bGammaproteobacteriaVibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_005299657.1Photobacterium damselae[NiFe] Group 1bGammaproteobacteriaVibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_008987220.1Photobacterium leiognathi[NiFe] Group 1bGammaproteobacteriaVibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_023403981.1Vibrio halioticoli[NiFe] Group 1bGammaproteobacteriaVibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_014353799.1Sulfobacillus acidophilus[NiFe] Group 1bFirmicutesClostridialesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_020374232.1Sulfobacillus thermosulfidooxidans[NiFe] Group 1bFirmicutesClostridialesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_014468932.1Arcobacter butzleri[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_014468937.1Arcobacter butzleri[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_013135169.1Arcobacter nitrofigilis[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_013135164.1Arcobacter nitrofigilis[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_020975057.1Campylobacter coli[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_021091366.1Campylobacter concisus[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_027305891.1Campylobacter cuniculorum[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_018136329.1Campylobacter curvus[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_002849472.1Campylobacter fetus[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_005870439.1Campylobacter gracilis[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_012108717.1Campylobacter hominis[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_002869087.1Campylobacter jejuni[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_012661425.1Campylobacter lari[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_002952687.1Campylobacter showae[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_004277637.1Campylobacter upsaliensis[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_016647003.1Campylobacter ureolyticus[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_011577655.1Helicobacter acinonychis[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_004087140.1Helicobacter bilis[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_013890446.1Helicobacter bizzozeronii[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_006655925.1Helicobacter canadensis[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_023929963.1Helicobacter canis[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_014661358.1Helicobacter cetorum[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_002956442.1Helicobacter cinaedi[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome
WP_013469730.1Helicobacter felis[NiFe] Group 1bEpsilonproteobacteriaCampylobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 2 x [4Fe4S] clusters, 1 x [3Fe4S] clusterCytochrome

Literature

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