Xenon in and at the end of the tunnel of bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase

Tzanko I. Doukov, Leah C. Blasiak, Javier Seravalli, Stephen W. Ragsdale, Catherine L. Drennan

Research output: Contribution to journalArticle

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Abstract

A fascinating feature of some bifunctional enzymes is the presence of an internal channel or tunnel to connect the multiple active sites. A channel can allow for a reaction intermediate generated at one active site to be used as a substrate at a second active site, without the need for the intermediate to leave the safety of the protein matrix. One such bifunctional enzyme is carbon monoxide dehydrogenase/acetyl-CoA synthase from Moorella thermoacetica (mtCODH/ACS). A key player in the global carbon cycle, CODH/ACS uses a Ni-Fe-S center called the C-cluster to reduce carbon dioxide to carbon monoxide and uses a second Ni-Fe-S center, called the A-cluster, to assemble acetyl-CoA from a methyl group, coenzyme A, and C-cluster-generated CO. mtCODH/ACS has been proposed to contain one of the longest enzyme channels (138 Å long) to allow for intermolecular CO transport. Here, we report a 2.5 Å resolution structure of xenon-pressurized mtCODH/ACS and examine the nature of gaseous cavities within this enzyme. We find that the cavity calculation program CAVENV accurately predicts the channels connecting the C- and A-clusters, with 17 of 19 xenon binding sites within the predicted regions. Using this X-ray data, we analyze the amino acid composition surrounding the 19 Xe sites and consider how the protein fold is utilized to carve out such an impressive interior passageway. Finally, structural comparisons of Xe-pressurized mtCODH/ACS with related enzyme structures allow us to study channel design principles, as well as consider the conformational flexibility of an enzyme that contains a cavity through its center.

Original languageEnglish (US)
Pages (from-to)3474-3483
Number of pages10
JournalBiochemistry
Volume47
Issue number11
DOIs
StatePublished - Mar 18 2008

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carbon monoxide dehydrogenase
Acetyl Coenzyme A
Xenon
Tunnels
Enzymes
Carbon Monoxide
Catalytic Domain
Moorella
Carbon Cycle
Reaction intermediates
Coenzyme A
Carbon Dioxide
Proteins
Carbon
Binding Sites
X-Rays

ASJC Scopus subject areas

  • Biochemistry

Cite this

Xenon in and at the end of the tunnel of bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase. / Doukov, Tzanko I.; Blasiak, Leah C.; Seravalli, Javier; Ragsdale, Stephen W.; Drennan, Catherine L.

In: Biochemistry, Vol. 47, No. 11, 18.03.2008, p. 3474-3483.

Research output: Contribution to journalArticle

Doukov, Tzanko I. ; Blasiak, Leah C. ; Seravalli, Javier ; Ragsdale, Stephen W. ; Drennan, Catherine L. / Xenon in and at the end of the tunnel of bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase. In: Biochemistry. 2008 ; Vol. 47, No. 11. pp. 3474-3483.
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