Table 4.
Major protein-level genome differences in P. furiosus COM1 strain relative to the NCBI reference strain (<90% identity)
| Gene | Gene annotationa | No. of identical residuesd | Alignment length (amino acids)d | Identity (%)d | Operon positionb | Predicted locationc |
|---|---|---|---|---|---|---|
| PF0054 | AsnC family transcriptional regulator | 91 | 155 | 58.7 | 6 of 7 | Cyt |
| PF0067 | Cobalt ABC transporter | 157 | 243 | 64.6 | 1 of 2 | Mem |
| PF0147 | Potassium channel-like protein | 23 | 205 | 11.2 | 2 of 2 | Cyt |
| PF0225 | N-Acetyltransferase | 111 | 201 | 55.2 | 1 of 2 | Cyt |
| PF0228 | Hypothetical protein | 49 | 89 | 55.1 | 2 of 3 | Cyt |
| PF0244 | Hypothetical protein | 38 | 89 | 42.7 | Cyt | |
| PF0314 | Signal peptidase | 58 | 173 | 33.5 | 2 of 3 | Cyt |
| PF0334 | Flagellum-like protein | 24 | 194 | 12.4 | 2 of 6 | Exc |
| PF0351 | Hypothetical protein | 22 | 285 | 7.7 | Cyt | |
| PF0352 | [CRISPR-associated protein, Cmr1-2 (21)] | 189 | 451 | 41.9 | Cyt | |
| PF0363 | Beta-galactosidase | 11 | 775 | 1.4 | 7 of 7 | Cyt |
| PF0423 | Hypothetical protein | 45 | 117 | 38.5 | 1 of 3 | Cyt |
| PF0424 | Hypothetical protein | 34 | 172 | 19.8 | 2 of 3 | Cyt |
| PF0439 | Hypothetical protein | 297 | 401 | 74.1 | Cyt | |
| PF0472 | <Class III signal peptide motif> | 42 | 54 | 77.8 | 2 of 2 | Exc |
| PF0524 | <Ribbon-helix-helix (Met_repress_like)> | 57 | 72 | 79.2 | 1 of 4 | Cyt |
| PF0611 | Hypothetical protein | 295 | 382 | 77.2 | Cyt | |
| PF0622 | Hypothetical protein | 7 | 33 | 21.2 | Cyt | |
| PF0710 | <Transcription repressor, DNA binding> | 79 | 157 | 50.3 | 3 of 3 | Cyt |
| PF0764 | DEXX-box ATPase | 232 | 434 | 53.5 | Cyt | |
| PF0777 | Hypothetical protein | 191 | 215 | 88.8 | Mem | |
| PF0785.2n | Hypothetical protein | 148 | 192 | 77.1 | NAf | |
| PF0873 | Hypothetical protein | 36 | 196 | 18.4 | Cyt | |
| PF0874 | Membrane dipeptidase | 9 | 379 | 2.4 | 1 of 2 | Cyt |
| PF0901 | Hypothetical protein | 121 | 142 | 85.2 | Cyt | |
| PF0960 | Hypothetical protein | 15 | 112 | 13.4 | 2 of 2 | Exc |
| PF1075 | Hypothetical protein | 3 | 219 | 1.4 | Mem | |
| PF1109 | <Carbohydrate-binding domain (CARDB)> | 959 | 1,132 | 84.7 | 1 of 2 | Exc |
| PF1113 | <tRNA amidotransferase GAD domain> | 199 | 223 | 89.2 | 1 of 3 | Cyt |
| PF1182 | <Thioredoxin-like fold> | 7 | 126 | 5.6 | Cyt | |
| PF1182.1n | Hypothetical protein | 53 | 169 | 31.4 | NA | |
| PF1206 | <Nucleic acid binding, PIN, PH0500> | 15 | 156 | 9.6 | 1 of 3 | Cyt |
| PF1748 | Sulfate permease, ABC transporter | 321 | 543 | 59.1 | 4 of 6 | Mem |
| PF1749 | Sulfate transport integral membrane protein | 10 | 228 | 4.4 | 5 of 6 | Mem |
| PF1761 | <Putative cell wall binding repeat 2> | 204 | 389 | 52.4 | 1 of 2 | Exc |
| PF1935e | Amylopullulanase | 1,114 | 1,355 | 82.2 | 3 of 6 | Exc |
a
Annotations are NCBI gene names (no brackets) and literature cited (square brackets), except for hypothetical genes, for which the best IPR (angle brackets) match is given if available.
b
Operon predictions from reference 55 based on the NCBI reference sequence.
c
Predicted cellular location; for an explanation, see footnote d of Table 2.
d
Based on Needleman-Wunsch global alignment with the NCBI reference sequence.
e
A fusion of PF1934 and PF1935 was previously reported (35). A longer product, which is closer in length to those in other pyrococci, was found in COM1.
f
NA, not applicable.