TABLE 3.
Characteristics of P. chrysosporium copper radical oxidase genes
| Gene | Previous gene modelsa |
cDNA sequence analysis |
||||||
|---|---|---|---|---|---|---|---|---|
| v1.0 | v2.1 | Molecular massb | pI | SSc | Best hitd | Accession no.e | Remarks | |
| cro1 | pc.120.7.1 + pc.120.6.1 | 124009 | 65 | 4.7 | 23/24 AHT-QT | C. neoformans gi57227801 (607) (ct) | DQ398767 | |
| cro2 | pc.46.103.1 | 134241 | 69 | 4.6 | 16/17 VLA-QG | U. maydis glo1 gi71013128 (522) | DQ398768 | |
| cro3 | pc.85.36.1 + gx.85.36.1 | 121818 | 80 | 4.6 | 20/21 ASA-FI | M. grisea gi39952025 (746) (ct) | DQ398769 | Two WSC domains |
| cro4 | gx.85.15.1 + pc.85.33.1 + pc.85.32.1 | 8882 | 106 | 4.6 | 21/22 SHA-SL | M. grisea gi39952025 (842) (ct) | DQ398770 | Four WSC domains |
| cro5 | gx.85.13.1 + pc.85.28.1 | 121730 | 106 | 4.4 | 21/22 VQA-SS | M. grisea gi39952025 (817) (ct) | DQ398771 | Four WSC domains |
| cro6 | pc.72.34.1 | 37905 | 82 | 5.3 | 21/22 VLA-SE | P. chrysosporium glx gi1050304 (412) | DQ398772 | |
| glx | pc.52.9.1 | 11068 | 57 | 5.1 | 22/23 ASD-AP | gi1050304 | ||
Automated gene models available at http://genome.jgi-psf.org/Phchr1/Phchr1.home.html, with v1.0 models archived. To directly access v2.1 model information, end the following URL with the model number: http://genome.jgi-psf.org/cgi-bin/dispGeneModel?db=Phchr1&id=___.
Predicted molecular mass of mature peptide in kilodaltons.
Secretion signals (SS) predicted by SignalP (www.cbs.dtu.dk/services/SignalP/) using both neural networks and hidden Markov models. Position and surrounding residues are shown. The glx signal was determined experimentally (23, 45).
BLASTP searches of nonredundant NCBI. ct, conceptual translation.
Deposited cDNA sequences were based on PCR-amplified products using RNA derived from standard carbon-starved cultures (cro1, cro3, cro4, and cro5), colonized wood wafers harvested on day 10 (cro2), and Avicel cultures harvested on day 6 (cro6). Subsequent RT-PCR and cDNA sequence analysis have shown that all seven copper radical oxidase transcripts are present in carbon-starved cultures and in colonized wood wafer after day 10.