[NiFe] Group 3d-hydrogenase

This entry was last updated at: Feb. 9, 2018, 6:37 a.m.

Properties
Group [NiFe] Group 3: Cofactor-coupled bidirectional [NiFe] hydrogenases
Subgroup [NiFe] Group 3d: NAD-coupled
Function Generates reductant for hydrogenotrophic carbon-fixation by directly coupling oxidation of H2 to reduction of NAD. Also acts in reverse direction to catalyse fermentative NADH-dependent production of H2. Electrons flow between H2-activating hydrogenase subunits to NAD-activating diaphorase subunits.
Activity Bidirectional
Oxygen tolerance O2-tolerant
Localisation Cytosolic
Distribution
Ecosystem distribution Diverse soil and aquatic environments
Taxonomic distribution Encoded in diverse Proteobacteria and Cyanobacteria
Genetic Organisation

e.g. Ralstonia eutropha (WP_011154013.1):

Architecture
Structures
  • 5XF9 (Hydrogenophilus thermoluteolus, 2.6 Å resolution, oxidised)
  • 5XFA (Hydrogenophilus thermoluteolus, 2.7 Å resolution, reduced)
Subunits 4 or 5
Subunit description HoxH (hydrogenase large subunit)
HoxY (hydrogenase small subunit)
HoxF (diaphorase catalytic subunit)
HoxU (diaphorase electron transfer subunit)
Photosynthetic bacteria also contain HoxE (iron-sulfur subunit)
Catalytic site [NiFe]-centre
FeS clusters Proximal: 4Cys[4Fe4S]
Medial: Absent
Distal: Absent
Sequences in this class
NCBI AccessionOrganismHydrogenase ClassPhylumOrderActivity (Predicted)Oxygen Tolerance (Predicted)Subunits (Predicted)Metal Centres (Predicted)Accessory Subunits (Predicted)
WP_028085013.1Dolichospermum circinale[NiFe] Group 3dCyanobacteriaNostocalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_028088931.1Dolichospermum circinale[NiFe] Group 3dCyanobacteriaNostocalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_006195766.1Nodularia spumigena[NiFe] Group 3dCyanobacteriaNostocalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015113185.1Nostoc sp. PCC 7107[NiFe] Group 3dCyanobacteriaNostocalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_010994940.1Nostoc sp. PCC 7120[NiFe] Group 3dCyanobacteriaNostocalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015138057.1Nostoc sp. PCC 7524[NiFe] Group 3dCyanobacteriaNostocalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_009341606.1Raphidiopsis brookii[NiFe] Group 3dCyanobacteriaNostocalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_011394103.1Hahella chejuensis[NiFe] Group 3dGammaproteobacteriaOceanospirillalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_020410523.1Hahella ganghwensis[NiFe] Group 3dGammaproteobacteriaOceanospirillalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_006669190.1Arthrospira maxima[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_006624081.1Arthrospira platensis[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_008053057.1Arthrospira sp. PCC 8005[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_006101686.1Coleofasciculus chthonoplastes[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_013323481.1Cyanothece sp. PCC 7822[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_017659307.1Geitlerinema sp. PCC 7105[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015171978.1Geitlerinema sp. PCC 7407[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_006512920.1Leptolyngbya sp. PCC 7375[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_023067990.1Lyngbya aestuarii[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_009785505.1Lyngbya sp. PCC 8106[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015182972.1Microcoleus sp. PCC 7113[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015151979.1Oscillatoria acuminata[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015175286.1Oscillatoria nigro-viridis[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_017715405.1Oscillatoria sp. PCC 10802[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_019498425.1Pseudanabaena sp. PCC 6802[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_017305034.1Spirulina subsalsa[NiFe] Group 3dCyanobacteriaOscillatorialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015153897.1Chroococcidiopsis thermalis[NiFe] Group 3dCyanobacteriaPleurocapsalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015144267.1Pleurocapsa minor[NiFe] Group 3dCyanobacteriaPleurocapsalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_019509061.1Pleurocapsa sp. PCC 7319[NiFe] Group 3dCyanobacteriaPleurocapsalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_006512117.1Xenococcus sp. PCC 7305[NiFe] Group 3dCyanobacteriaPleurocapsalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_012591738.1Methylocella silvestris[NiFe] Group 3dAlphaproteobacteriaRhizobialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_020174963.1Methyloferula stellata[NiFe] Group 3dAlphaproteobacteriaRhizobialesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_006931831.1Labrenzia aggregata[NiFe] Group 3dAlphaproteobacteriaRhodobacteralesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_008193041.1Labrenzia alexandrii[NiFe] Group 3dAlphaproteobacteriaRhodobacteralesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_008384205.1Rhodovulum sp. PH10[NiFe] Group 3dAlphaproteobacteriaRhodobacteralesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_011765148.1Azoarcus sp. BH72[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_015436644.1Azoarcus sp. KH32C[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_018992236.1Azoarcus toluclasticus[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_028994701.1Azonexus hydrophilus[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_014238042.1Azospira oryzae[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_026687097.1Azovibrio restrictus[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_027457859.1Dechloromonas agitata[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_018412521.1Methyloversatilis sp. NVD[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_020162845.1Methyloversatilis universalis[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_004322153.1Thauera aminoaromatica[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_004363405.1Thauera phenylacetica[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_002937457.1Thauera sp. 27[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_002929027.1Thauera sp. 28[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_004252763.1Thauera sp. 63[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_012585448.1Thauera sp. MZ1T[NiFe] Group 3dBetaproteobacteriaRhodocyclalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein
WP_011385756.1Magnetospirillum magneticum[NiFe] Group 3dAlphaproteobacteriaRhodospirillalesBidirectionalTolerant4[NiFe]-centre, 1 x [4Fe4S] clustersDiaphorase, [FeS] protein

Literature

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