Cfrench:hemtoppage

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Hemerythrins

What are hemerythrins?

Hemerythrins are oxygen binding proteins found in certain invertebrates: sipunculid worms (peanut worms), brachiopods (lamp shells) and some annelid worms. One has also been found in an amoeba. They serve the same function as hemoglobin and myoglobin in vertebrates, but do not contain a heme prosthetic group; instead they contain non-heme iron. Each hemerythin subunit contains two iron atoms bound to a characteristic set of ligands - five histidines, one aspartate and one glutamate.

  • Stenkamp, R.E. 1994. Dioxygen and hemerythin. Chemical Reviews 94, 715-726.
  • Wilkins, R.G. 1992. Binuclear iron centres in proteins. Chemical Society Reviews ?, 171-178.
  • Vanin, S., Negrisolo, E., Bailly, X., Bubacco, L., Beltramini, M., and Salvato, B. 2006. Molecular evolution and phylogeny of sipunculan hemerythrins. Journal of Molecular Evolution 62. 32-41.

What are bacteriohemerythrins?

Recently, proteins with similar sequence to hemerythrins have been found in some bacteria. Two of these, from Methylococcus capsulatus and Desulfovibrio vulgaris, have been expressed in Escherichia coli, purified, and shown to possess iron atoms and to bind oxygen in the same way as animal hemerythrins. Searches of genomic sequence databases have shown that hemerythrin-like proteins (for which we propose the name 'bacteriohemerythrins') are present in many genera of bacteria. Some are simple single-domain hemerythrins like those of animals; in other cases the hemerythrin domain is fused to another domain, most commonly a signal transduction domain such as a methyl-accepting chemotaxis receptor (MCP), a GGDEF domain, or a histidine kinase domain. In these cases the hemerythrin presumably functions as an oxygen-sensing domain.

  • Xiong, J., Kurtz, D.M., Ai, J., and Sanders-Loehr, J. 2000. A hemerythrin-like domain in a bacterial chemotaxis protein. Biochemistry 39, 5117-5125.
  • Kao, W.-C., Chen, Y.-R., Yi, E.C., Lee, H., Tian, Q., Wu, K.-M., Tsai, S.-F., Yu, S.S.-F., Chen, Y.-J., Aebersold, R., and Chan, S.I. 2004. Quantitative proteomic analysis of metabolic regulation by copper ions in Methylococcus capsulatus (Bath). Journal of Biological Chemistry 279, 51554-51560.
  • Karlsen, O.A., Ramsevik, L., Bruseth, L.J., Larsen, O., Brenner, A., Berven, F.S., Jensen, H.B., and Lillehaug, J.R. 2005. Characterization of a prokaryotic hemerythrin from the methanotrophic bacterium Methylococcus capsulatus (Bath). FEBS Journal 272, 2428-2440.
  • Isaza, C.E., Silaghi-Dumitrescu, R., Iyer, R.B., Kurtz, D.M., and Chan, M.K. 2006. Structural Basis for O2 sensing by the hemerythrin-like domain of a bacterial chemotaxis protein: substrate tunnel and fluxional N-terminus. Biochemistry 45, 9023-9031.

Why are we interested in hemerythrins?

Mainly because we are interested in magnetotactic bacteria, and our sequence searches show that magnetotactic bacteria contain far more different bacteriohemerythrins than any other type of bacteria for which genome data are available. Most species with bacteriohemerythrins have only one or two; a few have five or six, a couple as many as ten. The two species of Magnetospirillum which have been sequenced appear to contain around thirty different bacteriohemerythrin genes each, and Magnetococcus at least seventeen. Surely they must be playing some important role in the magnetotactic lifestyle. Some of them, such as those with MCP domains, are probably involved in finding the zone with the low oxygen concentration required for good growth and magnetosome formation; others may be involved in oxygen storage or magnetite synthesis.

Genera of bacteria and archaea with hemerythrin-like genes

Genusfamilyorderclass/phylumnumber of hemerythrins
Acidobacteria sp.AcidobacteriaeaeAcidobacterialesAcidobacteria4
AcidovoraxComamonadaceaeBurkholderialesBetaproteobacteria1,3
AeromonasAeromonadaceaeAeromonadalesGammaproteobacteria2
AlcanivoraxAlcanivoraceaeOceanospirillalesGammaproteobacteria1
AlkalilimnicolaEctothiorhodospiraceaeChromatialesGammaproteobacteria2
AnaeromyxobacterMyxococcaceaeMyxococcalesDeltaproteobacteria8
AquifexAquificaceaeAquificalesAquificae1
AzotobacterPseudomonadaceaePseudomonadalesGammaproteobacteria1
BdellovibrioBdellovibrionaceaeBdellovibrionalesDeltaproteobacteria1
BordetellaAlcaligenaceaeBurkholderialesBetaproteobacteria1
BurkholderiaBurkholderiaceaeBurkholderialesBetaproteobacteria23 strains 1 each, 1 strain has 3
CampylobacterCampylobacteraceaeCampylobacteralesEpsilonproteobacteria7, 2, 6, 3, 5, 5, 5, 5, 3, 2, 2, 5
CaldocellulosiruptorSyntrophomonadaceaeClostridialesClostridia, Firmicutes1
ClostridiumClostridicaeaeClostridialesClostridia, Firmicutes1, 6, 5, 1, 2
ColwelliaColwelliaceaeAlteromonadalesGammaproteobacteria7
ComamonasComamonadaceaeBurkholderialesBetaproteobacteria4
DechloromonasRhodocyclaceaeRhodocyclalesBetaproteobacteria10
DesulfitobacteriumPeptococcaceaeClostridialesClostridia, Firmicutes2, 2
DesulfotaleaDesulfobulbaceaeDesulfobacteralesDeltaproteobacteria3
DesulfovibrioDesulfovibrionaceaeDesulfovibrionalesDeltaproteobacteria3, 4, 4
DesulfuromonasDesulfuromonadaceaeDesulfuromonadalesDeltaproteobacteria10
LeuwenhoekiellaFlavobacteriaceaeFlavobacterialesFlavobacteria, Bacteroidetes1
GeobacterGeobacteraceaeDesulfuromonadalesDeltaproteobacteria2, 2, 2, 5
HaloarculaHalobacteriaceaeHalobacterialesHalobacteria, Euryarchaeota1
HalorhodospiraEctothiorhodospiraceaeChromatialesGammaproteobacteria1
HelicobacterHelicobacteraceaeCampylobacteralesEpsilonproteobacteria2
HydrogenobacterAquificaceaeAquificalesAquificae1
IdiomarinaIdiomarinaceaeAlteromonadalesGammaproteobacteria1, 1
JanthinobacteriumOxalobacteraceaeBurkholderialesBetaproteobacteria1 or 2
Kuenenia PlanctomycetalesPlanctomycetes2
Magnetococcus Proteobacteria14 to 19
MagnetospirillumRhodospirillaceaeRhodospirillalesAlphaproteobacteriaapprox 29, 29
Mariprofundus Proteobacteria1
MesorhizobiumPhyllobacteriaceaeRhizobialesAlphaproteobacteria1
MethanocaldococcusMethanocaldococcaceaeMethanococcalesMethanococci, Euryarchaeota1
MethanospirillumMethanospirillaceaeMethanomicrobialesMethanomicrobia, Euryarchaeota2
MethylococcusMethylococcaceaeMethylococcalesGammaproteobacteria1
MLMS1 Deltaprotebacteria5?
Oceanospirillum OceanospirillalesGammaproteobacteria3
PelobacterPelobacteraceaeDesulfuromonadalesDeltaproteobacteria3, 1
PolaromonasComamonadaceaeBurkholderialesBetaproteobacteria3
PseudomonasPseudomonadaceaePseudomonadalesGammaproteobacteria8 strains, 1 each
RalstoniaBurkholderiaceaeBurkholderiaceaeBetaproteobacteria2, 2, 1
Reinekea Gammaproteobacteria2
RhodoferaxComamonadaceaeBurkholderialesBetaproteobacteria2,2
RhodopseudomonasBradyrhizobiaceaeRhizobialesAlphaproteobacteria1, 1, 1
RhodospirillumRhodospirillaceaeRhodospirillalesAlphaproteobacteria6
ShewanellaShewanellaceaeAlteromonadalesGammaproteobacteria11 strains, 1 each
SolibacterSolibacteraceaeSolibacteralesSolibacteres, Acidobacteria3
Symbiobacterium Actinobacteria1
SyntrophomonasSyntrophomonadaceaeClostridialesClostridia, Firmicutes1
ThermoanaerobacterThermoanaerobacteriaceaeThermoanaerobacterialesClostridia, Firmicutes1
Thermosynechococcus ChroococcalesCyanobacteria2
ThiomicrospiraHelicobacteraceaeCampylobacteralesEpsilonproteobacteria1
VerminephrobacterComamonadaceaeBurkholderialesBetaproteobacteria1
VibrioVibrionaceaeVibrionalesGammaproteobacteria8 strains, 1 each
WolinellaHelicobacteraceaeCampylobacteralesEpsilonproteobacteria1
XanthomonasXanthomonadaceaeXanthomonadalesGammaproteobacteria1, 1, 1, 1

List of prokaryote genera with putative bacteriohemerythrins

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