EC Number | Crystallization (Comment) | Organism |
---|---|---|
1.2.5.3 | vapor diffusion method using 0.8 M KH2PO4, 0.8 M NaH2PO4, 2% MPD, and 100 mM HEPES, pH 7.3, crystals containing cyanide are cocrystallized in the presence of 4 mM potassium cyanide, X-ray diffraction structure determination and analysis at 2.36-2.5 A resolution | Afipia carboxidovorans |
1.2.7.4 | vapor diffusion, 800 mM KH2PO4, 800 mM NaH2PO4, 2% 2-methyl-2,4-pentanediol, 100 mM HEPES, pH 7.3 | Afipia carboxidovorans |
EC Number | Metals/Ions | Comment | Organism | Structure |
---|---|---|---|---|
1.2.5.3 | Fe2+ | - |
Afipia carboxidovorans | |
1.2.5.3 | Molybdenum | in air-oxidized CO dehydrogenase, the oxidation state of Mo is +VI | Afipia carboxidovorans | |
1.2.5.3 | selenium | necessity of S-selanylcysteine for the catalyzed reaction, the selenium atom of S-selanylcysteine at the active site is located in a distance of 3.7 A from the Mo ion. It is near the equatorial oxo and hydroxo group of the Mo ion | Afipia carboxidovorans | |
1.2.5.3 | [2Fe-2S] cluster | two types of [2Fe-2S] clusters, [2Fe-2S] clusters of type I and type II, the two [2Fe-2S] clusters are located in the S subunit. These prosthetic groups form a pathway for the electrons to the FAD. The C-terminal domain (residues 77-161) carries the proximal [2Fe-2S] cluster. The cluster is buried in CO dehydrogenase about 11 A below the protein surface at the interface between the S and the L subunit and is adjacent to the MCD-molybdenum cofactor. The [2Fe-2S] cluster is located at the N terminus of two alpha-helices that participate in a four-helix bundle of twofold symmetry | Afipia carboxidovorans | |
1.2.7.4 | Molybdenum | molybdopterin-cytosine dinucleotide cofactor is composed of a molybdenum ion with 2 oxo- and 1 hydroxoligand complexed by the enedithiolene group of molybdopterin | Afipia carboxidovorans |
EC Number | Molecular Weight [Da] | Molecular Weight Maximum [Da] | Comment | Organism |
---|---|---|---|---|
1.2.7.4 | 17800 | - |
L2,M2,S2, 2 * 17800 + 2 * 30200 + 2 * 88700, dimer of heterotrimers, SDS-PAGE, crystal structure | Afipia carboxidovorans |
1.2.7.4 | 30200 | - |
L2,M2,S2, 2 * 17800 + 2 * 30200 + 2 * 88700, dimer of heterotrimers, SDS-PAGE, crystal structure | Afipia carboxidovorans |
1.2.7.4 | 88700 | - |
L2,M2,S2, 2 * 17800 + 2 * 30200 + 2 * 88700, dimer of heterotrimers, SDS-PAGE, crystal structure | Afipia carboxidovorans |
EC Number | Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
---|---|---|---|---|---|---|---|
1.2.7.4 | CO + H2O + electron acceptor | Afipia carboxidovorans | a proton gradient across the cytoplasmic membrane is generated by channeling the electrons formed via cytochrome b561 into a CO-insensitive respiratory chain | CO2 + reduced electron acceptor | - |
? |
EC Number | Organism | UniProt | Comment | Textmining |
---|---|---|---|---|
1.2.5.3 | Afipia carboxidovorans | P19919 and P19920 and P19921 | genes coxL, coxM, and coxS | - |
1.2.7.4 | Afipia carboxidovorans | - |
- |
- |
EC Number | Reaction | Comment | Organism | Reaction ID |
---|---|---|---|---|
1.2.5.3 | CO + a quinone + H2O = CO2 + a quinol | hypothetical reaction mechanism, overview | Afipia carboxidovorans |
EC Number | Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
---|---|---|---|---|---|---|---|
1.2.5.3 | CO + a quinone + H2O | - |
Afipia carboxidovorans | CO2 + a quinol | - |
? | |
1.2.7.4 | CO + H2O + electron acceptor | a proton gradient across the cytoplasmic membrane is generated by channeling the electrons formed via cytochrome b561 into a CO-insensitive respiratory chain | Afipia carboxidovorans | CO2 + reduced electron acceptor | - |
? |
EC Number | Subunits | Comment | Organism |
---|---|---|---|
1.2.5.3 | heterohexamer | CO dehydrogenase is composed of an 88.7-kDa molybdoprotein (subunit L), a 30.2-kDa flavoprotein (subunit M), and a 17.8-kDa iron-sulfur protein (subunit S). It is organized as a dimer of LMS heterotrimers | Afipia carboxidovorans |
1.2.7.4 | hexamer | L2,M2,S2, 2 * 17800 + 2 * 30200 + 2 * 88700, dimer of heterotrimers, SDS-PAGE, crystal structure | Afipia carboxidovorans |
EC Number | Cofactor | Comment | Organism | Structure |
---|---|---|---|---|
1.2.5.3 | FAD | one noncovalently bound FAD molecule per monomer, FAD-binding occurs on the M subunit and requires conformational changes of subunit M introduced through the binding of subunt M to subunits LS. In air-oxidized CO dehydrogenase, the flavin is fully oxidized | Afipia carboxidovorans | |
1.2.5.3 | molybdopterin cofactor | the L subunit carries the molybdenum cofactor, which is a mononuclear complex of Mo and molybdopterin-cytosine dinucleotide (MCD). The latter occurs in a redox state that is reduced by two electrons compared with the fully oxidized state, a tricyclic tetrahydropterin-pyran system. The MCD-molybdenum cofactor is buried at the center of the L subunit and is ligated through a dense network of hydrogen bonds originating from both domains of subunit L. The geometry of the first coordination sphere around the Mo ion is a distorted square pyramid | Afipia carboxidovorans | |
1.2.5.3 | additional information | the enzyme is a molybdo iron-sulfur flavoprotein containing S-selanylcysteine. The redox components of one LMS-structured monomer are the MCD-molybdenum cofactor, composed of a molybdenum ion with two oxo- and one hydroxoligand, complexed by the enedithiolene group of MCD, [2Fe-2S] clusters of type I and type II, and a noncovalently bound FAD molecule | Afipia carboxidovorans | |
1.2.7.4 | flavin adenine dinucleotide | - |
Afipia carboxidovorans | |
1.2.7.4 | molybdopterin cytosine dinucleotide | cofactor is buried at the center of the L subunit | Afipia carboxidovorans |
EC Number | General Information | Comment | Organism |
---|---|---|---|
1.2.5.3 | evolution | CO dehydrogenase is a member of the xanthine oxidase family | Afipia carboxidovorans |