[NiFe] Group 1a-hydrogenase

This entry was last updated at: Feb. 9, 2018, 6:58 a.m.

Properties
Group [NiFe] Group 1: Respiratory H2-uptake [NiFe] hydrogenases
Subgroup [NiFe] Group 1a: Periplasmic
Function Hydrogenotrophic respiration using sulfate, metal, or organohalide compounds as terminal electron acceptors. Enzyme transfers H2-liberated electrons through cytochrome c3 to terminal reductase.
Activity H2-uptake (unidirectional)
Oxygen tolerance O2-sensitive (NiFe variants) or O2-tolerant (NiFeSe variants)
Localisation Periplasmic
Distribution
Ecosystem distribution Anoxic soils and sediments, marine waters, animal gastrointestinal tracts
Taxonomic distribution Widespread in sulfate-reducing Deltaproteobacteria and Firmicutes
Genetic Organisation

e.g. Desulfovibrio vulgaris (WP_010939204.1):

Architecture
Structures
  • 4KN9 (Desulfomicrobium baculatum, 1.4 Å resolution, active)
  • 4KO1 (Desulfomicrobium baculatum, 1.6 Å resolution, active)
  • 4KO2 (Desulfomicrobium baculatum, 1.6 Å resolution, active)
  • 1CC1 (Desulfomicrobium baculatum, 2.2 Å resolution, active)
  • 4KO3 (Desulfomicrobium baculatum, 1.7 Å resolution, oxidised)
  • 4KO4 (Desulfomicrobium baculatum, 2.0 Å resolution, oxidised)
  • 4KL8 (Desulfomicrobium baculatum, 1.5 Å resolution, oxidised)
  • 3ZEA (Desulfovibrio vulgaris, 1.8 Å resolution, reduced)
  • 3ZE7 (Desulfovibrio vulgaris, 2.0 Å resolution, reduced)
  • 3ZE8 (Desulfovibrio vulgaris, 2.0 Å resolution, reduced)
  • 3ZE9 (Desulfovibrio vulgaris, 1.3 Å resolution, oxidised)
  • 3ZE6 (Desulfovibrio vulgaris, 1.5 Å resolution, oxidised)
  • 2WPN (Desulfovibrio vulgaris, 2.0 Å resolution, oxidised)
  • 5JSK (Desulfovibrio vulgaris, 1.0 Å resolution, reduced)
  • 5JSU (Desulfovibrio vulgaris, 1.4 Å resolution, reduced)
Subunits 3
Subunit description HysA (hydrogenase large subunit)
HysB (hydrogenase small subunit)
CycA (cytochrome c3 subunit)
Catalytic site [NiFe]-centre or [NiFeSe]-centre
FeS clusters Proximal: 4Cys[4Fe4S]
Medial: 4Cys[4Fe4S]
Distal: 3Cys1His[4Fe4S]
Sequences in this class
NCBI AccessionOrganismHydrogenase ClassPhylumOrderActivity (Predicted)Oxygen Tolerance (Predicted)Subunits (Predicted)Metal Centres (Predicted)Accessory Subunits (Predicted)
WP_014116604.1Oscillibacter valericigenes[NiFe] Group 1aFirmicutesClostridialesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_017379378.1Paenisporosarcina sp. TG-14[NiFe] Group 1aFirmicutesClostridialesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_012032862.1Pelotomaculum thermopropionicum[NiFe] Group 1aFirmicutesClostridialesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_013174572.1Syntrophothermus lipocalidus[NiFe] Group 1aFirmicutesClostridialesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_013119172.1Thermincola potens[NiFe] Group 1aFirmicutesClostridialesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_013119653.1Thermincola potens[NiFe] Group 1aFirmicutesClostridialesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_013011808.1Denitrovibrio acetiphilus[NiFe] Group 1aDeferribacteresDeferribacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_013885747.1Flexistipes sinusarabici[NiFe] Group 1aDeferribacteresDeferribacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_015407385.1Dehalococcoides mccartyi[NiFe] Group 1aChloroflexiDehalogenimonasAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_013217520.1Dehalogenimonas lykanthroporepellens[NiFe] Group 1aChloroflexiDehalogenimonasAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_013218717.1Dehalogenimonas lykanthroporepellens[NiFe] Group 1aChloroflexiDehalogenimonasAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_020589054.1Desulfobacter curvatus[NiFe] Group 1aDeltaproteobacteriaDesulfobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_004071552.1Desulfobacter postgatei[NiFe] Group 1aDeltaproteobacteriaDesulfobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_004072606.1Desulfobacter postgatei[NiFe] Group 1aDeltaproteobacteriaDesulfobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_014959255.1Desulfobacula toluolica[NiFe] Group 1aDeltaproteobacteriaDesulfobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_022664892.1Desulfospira joergensenii[NiFe] Group 1aDeltaproteobacteriaDesulfobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_011187404.1Desulfotalea psychrophila[NiFe] Group 1aDeltaproteobacteriaDesulfobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_024335307.1Desulfotignum balticum[NiFe] Group 1aDeltaproteobacteriaDesulfobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_027365812.1Desulfotomaculum alcoholivorax[NiFe] Group 1aDeltaproteobacteriaDesulfobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_013162757.1Desulfurivibrio alkaliphilus[NiFe] Group 1aDeltaproteobacteriaDesulfobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_029915207.1Pelobacter seleniigenes[NiFe] Group 1aDeltaproteobacteriaDesulfobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_009380431.1Bilophila sp. 4_1_30[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_009368189.1Bilophila sp. 4_1_30[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_005028324.1Bilophila wadsworthia[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_005027974.1Bilophila wadsworthia[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_015774148.1Desulfomicrobium baculatum[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_028575942.1Desulfomicrobium escambiense[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_028573845.1Desulfonatronovibrio hydrogenovorans[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_029968792.1Desulfonauticus sp. A7A[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_027360998.1Desulfovibrio acrylicus[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_014261065.1Desulfovibrio africanus[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_011368032.1Desulfovibrio alaskensis[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_027178658.1Desulfovibrio bastinii[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_020001710.1Desulfovibrio desulfuricans[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_015336980.1Desulfovibrio hydrothermalis[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_027185047.1Desulfovibrio inopinatus[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_006003971.1Desulfovibrio piger[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_015851925.1Desulfovibrio salexigens[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_010939204.1Desulfovibrio vulgaris[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_027722757.1Desulfovibrio zosterae[NiFe] Group 1aDeltaproteobacteriaDesulfovibrionalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_021169773.1Sporomusa ovata[NiFe] Group 1aFirmicutesSelenomonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_007288048.1Thermosinus carboxydivorans[NiFe] Group 1aFirmicutesSelenomonadalesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_015739219.1Ammonifex degensii[NiFe] Group 1aFirmicutesThermoanaerobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_015739752.1Ammonifex degensii[NiFe] Group 1aFirmicutesThermoanaerobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_028052542.1Carboxydothermus ferrireducens[NiFe] Group 1aFirmicutesThermoanaerobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_011344452.1Carboxydothermus hydrogenoformans[NiFe] Group 1aFirmicutesThermoanaerobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_015049787.1Thermacetogenium phaeum[NiFe] Group 1aFirmicutesThermoanaerobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_013755712.1Thermodesulfobium narugense[NiFe] Group 1aFirmicutesThermoanaerobacteralesAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome
WP_025324287.1Deferrisoma camini[NiFe] Group 1aDeltaproteobacteriaUnclassifiedAnaerobic UptakeSensitive3[NiFe]-centre, 3 x [4Fe4S] clustersCytochrome

Literature

Genetics:

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