TABLE 4.
CDS potentially encoding c-type cytochromes in the T. denitrificans genomea
| CDS | Annotationb | Molecular mass (Da)c | No. of hemes |
|---|---|---|---|
| Tbd0055 | Cytochrome c family protein | 20,116 | 1 |
| Tbd0064 | Cytochrome c-553 | 23,727 | 2 |
| Tbd0070 | Probable nirN | 63,589 | 1 |
| Tbd0076 | Probable nirC | 10,547 | 1 |
| Tbd0077 | nirS (cytochrome cd1) | 62,992 | 1 |
| Tbd0094 | Hypothetical protein | 17,109 | 1 |
| Tbd0128 | Cytochrome c | 38,000 | 2 |
| Tbd0129 | Cytochrome c | 21,784 | 2 |
| Tbd0137 | Diheme cytochrome c | 19,427 | 2 |
| Tbd0138 | Cytochrome c-type protein | 14,395 | 1 |
| Tbd0146 | Probable cytochrome c5 | 26,734 | 2 |
| Tbd0187 | Cytochrome c | 21,387 | 2 |
| Tbd0219 | Flavin adenine dinucleotide-flavin mononucleotide-containing dehydrogenase | 138,251 | 1 |
| Tbd0325 | aa3-type cytochrome c oxidase, subunit II | 41,279 | 1 |
| Tbd0339 | cbb3-type cytochrome c oxidase, subunit II | 28,037 | 1 |
| Tbd0341 | cbb3-type cytochrome c oxidase, subunit III | 33,124 | 2 |
| Tbd0436 | Excinuclease ATPase subunit | 103,145 | 1 |
| Tbd0562 | norC | 15,845 | 1 |
| Tbd0564 | soxA | 30,960 | 1 |
| Tbd0567 | soxX | 12,712 | 1 |
| Tbd0571 | DMSO reductase chain B | 25,909 | 1 |
| Tbd0640 | cbb3-type cytochrome c oxidase, subunit III | 33,873 | 2 |
| Tbd0642 | cbb3-type cytochrome c oxidase, subunit II | 22,314 | 1 |
| Tbd0723 | Possible high-affinity Fe2+/Pb2+ permease | 69,511 | 1 |
| Tbd0752 | Mannose-sensitive hemagglutinin pilin biogenesis ATPase protein MshE | 62,481 | 1 |
| Tbd0820 | Cytochrome c (in or near nonfunctional nor cluster) | 57,261 | 2 |
| Tbd0822 | norC-related (potentially not functional) | 30,200 | 2 |
| Tbd0840 | Probable cytochrome c5 | 16,718 | 1 |
| Tbd0917 | soxX | 13,246 | 1 |
| Tbd0918 | soxA | 30,875 | 1 |
| Tbd1169 | Ferredoxin, 2Fe-2S | 12,259 | 1 |
| Tbd1357 | Unknown | 16,635 | 1 |
| Tbd1398 | Putative cytochrome c-type protein | 15,842 | 1 |
| Tbd1404 | narH | 59,191 | 1 |
| Tbd1484 | Cytochrome c | 9,544 | 1 |
| Tbd1520 | Putative Fe-S protein | 48,430 | 1 |
| Tbd1542 | ATPase involved in DNA replication | 61,297 | 1 |
| Tbd1564 | Probable ribonuclease E | 95,354 | 1 |
| Tbd1585 | Putative pyruvate formate-lyase-activating enzyme | 40,800 | 1 |
| Tbd1831 | Putative cytochrome c1 | 27,211 | 1 |
| Tbd1840 | Unknown | 11,061 | 1 |
| Tbd2026 | Possible cytochrome c4 or c-553 | 11,253 | 1 |
| Tbd2027 | Cytochrome c, class IC | 11,521 | 1 |
| Tbd2034 | Possible cytochrome subunit of sulfide dehydrogenase | 10,395 | 1 |
| Tbd2060 | Possible alpha-mannosidase | 64,835 | 1 |
| Tbd2157 | Cytochrome c | 18,742 | 1 |
| Tbd2170 | Activase of anaerobic class III ribonucleotide reductase | 24,585 | 1 |
| Tbd2181 | Unknown | 20,904 | 1 |
| Tbd2476 | dsrJ | 17,948 | 3 |
| Tbd2477 | dsrL | 71,328 | 1 |
| Tbd2545 | Diheme cytochrome c | 37,973 | 2 |
| Tbd2726 | Cytochrome c | 11,096 | 1 |
| Tbd2727 | Conserved protein of unknown function | 74,616 | 1 |
| Tbd2738 | Zinc-dependent hydrolase | 26,287 | 1 |
a
As defined by the presence of at least one CXXCH heme-binding motif. Tbd0039 (which encodes ribosomal protein L31) and Tbd1539 (which encodes DnaJ) include the CXXCH motif but were excluded from this table.
b
Best attempt at annotation based on examination of best BLASTP hits, top 10 PSI-BLAST hits, and genomic context.
c
Molecular mass predicted for the unprocessed gene product without cofactors.