[NiFe] Group 3b-hydrogenase

This entry was last updated at: Feb. 9, 2018, 7:34 a.m.

Properties
Group [NiFe] Group 3: Cofactor-coupled bidirectional [NiFe] hydrogenases
Subgroup [NiFe] Group 3b: NADP-coupled
Function Directly couples oxidation of NADPH to fermentative evolution of H2. Reverse reaction may also occur. Some complexes controversially proposed to harbour sulfhydrogenase activity.
Activity Bidirectional
Oxygen tolerance O2-tolerant
Localisation Cytosolic
Distribution
Ecosystem distribution Diverse soil and aquatic environments
Taxonomic distribution Encoded in multiple diverse bacterial and archaeal phyla
Genetic Organisation

e.g. Pyrococcus furiosus (WP_011012029.1):

Architecture
Structures
  • 5ODC (Methanothermococcus thermolithotrophicus, 2.3 Å resolution)
  • 5ODH (Methanothermococcus thermolithotrophicus, 2.2 Å resolution, bound with heterodisulfide)
  • 5ODI (Methanothermococcus thermolithotrophicus, 2.4 Å resolution, bound with coenzyme M)
Subunits 4
Subunit description HyhL (hydrogenase large subunit)
HyhS (hydrogenase small subunit)
HyhG (diaphorase catalytic subunit)
HyhB (diaphorase electron transfer subunit)
Catalytic site [NiFe]-centre
FeS clusters Proximal: 4Cys[4Fe4S]
Medial: 4Cys[4Fe4S]
Distal: 4Cys[4Fe4S]
Important Notes
Despite the ubiquitous nature of this hydrogenase, the enzyme has only been purified from Pyrococcus furiosus. It remains unclear whether bacterial enzymes are also NADP+-specific.
Sequences in this class
NCBI AccessionOrganismHydrogenase ClassPhylumOrderActivity (Predicted)Oxygen Tolerance (Predicted)Subunits (Predicted)Metal Centres (Predicted)Accessory Subunits (Predicted)
WP_009061764.1Methylacidiphilum fumariolicum[NiFe] Group 3bVerrucomicrobiaVerrucomicrobialesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_008098529.1Verrucomicrobiae bacterium DG1235[NiFe] Group 3bVerrucomicrobiaVerrucomicrobialesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_024807859.1Verrucomicrobiae bacterium LP2A[NiFe] Group 3bVerrucomicrobiaVerrucomicrobialesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_018290138.1Verrucomicrobium sp. 3C[NiFe] Group 3bVerrucomicrobiaVerrucomicrobialesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_017890430.1Caldatribacterium californiense[NiFe] Group 3bAtribacteriaUnclassifiedBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_017873497.1Caldatribacterium saccharofermentans[NiFe] Group 3bAtribacteriaUnclassifiedBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_014068049.1Rhodothermus marinus[NiFe] Group 3bBacteroidetesUnclassifiedBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_008085116.1Aciduliprofundum boonei[NiFe] Group 3bEuryarchaeotaUnclassifiedBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015283468.1Aciduliprofundum sp. MAR08-339[NiFe] Group 3bEuryarchaeotaUnclassifiedBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_009021278.1Luminiphilus syltensis[NiFe] Group 3bGammaproteobacteriaUnclassifiedBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_012308976.1Korarchaeum cryptofilum[NiFe] Group 3bKorarchaeotaUnclassifiedBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_022808428.1Omnitrophus fodinae[NiFe] Group 3bOmnitrophicaUnclassifiedBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_020864100.1Caldiarchaeum subterraneum[NiFe] Group 3bThaumarchaeotaUnclassifiedBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_002691721.1Beggiatoa alba[NiFe] Group 3bGammaproteobacteriaThiotrichalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_018300187.1Fangia hongkongensis[NiFe] Group 3bGammaproteobacteriaThiotrichalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_012280244.1Francisella philomiragia[NiFe] Group 3bGammaproteobacteriaThiotrichalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_013923702.1Francisella sp. TX077308[NiFe] Group 3bGammaproteobacteriaThiotrichalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_028490240.1Thiothrix lacustris[NiFe] Group 3bGammaproteobacteriaThiotrichalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_002708355.1Thiothrix nivea[NiFe] Group 3bGammaproteobacteriaThiotrichalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_010867988.1Pyrococcus abyssi[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_010868072.1Pyrococcus abyssi[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_011012029.1Pyrococcus furiosus[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_011012478.1Pyrococcus furiosus[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_010885378.1Pyrococcus horikoshii[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_013749130.1Pyrococcus sp. NA2[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_013749017.1Pyrococcus sp. NA2[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_014734005.1Pyrococcus sp. ST04[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_014734228.1Pyrococcus sp. ST04[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_013905579.1Pyrococcus yayanosii[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_013904776.1Pyrococcus yayanosii[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_013466811.1Thermococcus barophilus[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_013466346.1Thermococcus barophilus[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_011251019.1Thermococcus kodakarensis[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_020953630.1Thermococcus litoralis[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_004069412.1Thermococcus litoralis[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_012571493.1Thermococcus onnurineus[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_012571009.1Thermococcus onnurineus[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015848571.1Thermococcus sibiricus[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015849791.1Thermococcus sibiricus[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_014012081.1Thermococcus sp. 4557[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_014012582.1Thermococcus sp. 4557[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_014122569.1Thermococcus sp. AM4[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_014788000.1Thermococcus sp. CL1[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_014788486.1Thermococcus sp. CL1[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_010479591.1Thermococcus zilligii[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_010479608.1Thermococcus zilligii[NiFe] Group 3bEuryarchaeotaThermococcalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015051716.1Thermacetogenium phaeum[NiFe] Group 3bFirmicutesThermoanaerobacteralesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_027877222.1Meiothermus cerbereus[NiFe] Group 3bDeinococcus-ThermusThermalesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_013706649.1Desulfobacca acetoxidans[NiFe] Group 3bDeltaproteobacteriaSyntrophobacteralesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_011416040.1Syntrophus aciditrophicus[NiFe] Group 3bDeltaproteobacteriaSyntrophobacteralesBidirectionalTolerant4[NiFe]-centre, 3 x [4Fe4S] clustersDiaphorase, [FeS] protein

Literature

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