Table 2.
Eukaryotic Orthologous Groups (KOG) classification of absent or discontiguos genes detected in NRRL3631 genome in comparison to CBS277.49. A total of 395 sequences assigned to KOG classifications within the principal 17 categories are shown.
| KOG | (no.) Absent genes | (no.) Discontigous genes |
|---|---|---|
| RNA processing | (2) ATP-dependent RNA helicase | (2) RNA adenine N-6-methyltransferase |
| (1) RRM motif-containing protein | (2) Splicing factor | |
| (1) Alternative splicing factor SRp20/9G8 | (1) Polyadenylate-binding protein (RRM) | |
| Nuclear Structure | (7) Nucleolar GTPase/ATPase p130 | (2) Nucleolar GTPase |
| (2) Nuclear pore complex p54 component | ||
| Chromatin structure and dynamics | (3) DNA-binding centromere protein B | (1) SNF transcription factor |
| (2) Chromatin-associated protein Dek | (2) Histone 2A | |
| Cell cycle control and cell division | (3) DNA helicase PIF1/RRM3 | (1) ATP-dependent DNA helicase |
| (1) Serine/threonine protein kinase Chk2 | (2) Transcription initiation factor IIF subunit | |
| (1) Chromosome condensation complex | (1) Transcription factor Myb superfamily | |
| (1) P53-interacting protein 53BP/ASPP | (1) Nuclear receptor coregulatory SMRT/SMRTER | |
| (1) Proline-serine-threonine phosphatase interacting protein | (1) Proline-serine-threonine phosphatase interacting protein | |
| (1) Caspase C14 | ||
| Replication, repair and recombination | (1) Ribonuclease H | |
| (1) Mismatch repair ATPase MSH6 | ||
| Transcription | (2) Nuclear localization sequence binding protein | (1) Transcription initiation factor TFIID |
| (1) Chromodomain-helicase DNA-binding protein | (1) Transcription factor, Myb superfamily | |
| (3) Predicted forkhead transcription factor | (1) Nuclear receptor coregulator SMRT/SMRTE | |
| (1) Histone acetyltransferase | ||
| (2) Heat shock transcription factor | ||
| (4) Transcription factor | ||
| (1) Nuclear receptor coregulator | ||
| Signal transduction mechanisms | (3) Serine/threonine protein kinase | (1) G-protein |
| (2) Ca2+ bindig protein | (1) Lipoprotein receptors | |
| (1) C-type lectin | (1) cAMP-dependent protein kinase (PKA) | |
| (2) GTP-binding protein | (1) Calmodulin | |
| (1) FOG: Hormone receptors | (2) C-type lectin | |
| (1) Glycosylphosphatidylinositol anchor synthesis protein | (2) Guanine nucleotide exchange factor | |
| (1) Serine/threonine protein phosphatase 2A | ||
| Intracellular trafficking secretion and vesicular transport | (1) Rab3 effector RIM1 | (1) Vesicle coat complex COPI |
| (2) GTPase Rab5 | (1) Clathrin | |
| (1) Vesicle coat complex AP-3 | (2) GTPase Rab6 | |
| (1) Vesicle coat complex COPI, | (1) Peroxin | |
| (1) Vacuolar assembly/sorting protein VPS9 | (1) Mitochondrial import inner membrane translocase | |
| (2) Clathrin coat binding protein | ||
| (2) Guanine nucleotide exchange factor | ||
| Translation, ribosomal structure and biogenesis | (13) Ribosomal protein | |
| (5) Elongation factor | ||
| Post-translational modification, protein turnover chaperones | (8) E3 ubiquitin ligase | (3) Chaperone |
| (2) Chaperones HSP70/HSC70 | (1) Ubiquitin-protein ligase | |
| (1) Beta-1, 6-N-acetylglucosaminyltransferase | (1) Peptidyl-prolyl cis-trans isomerase | |
| (1) Protein farnesyltransferase | (1) Serine palmitoyltransferase | |
| (1) Prohibitin | ||
| (1) Myosin phosphatase | ||
| (2) AAA ATPase | ||
| Defense mechanisms | (1) Pyrazinamidase/nicotinamidase PNC1 | (1) Von Willebrand factor |
| Extracellular structures and cell wall biogenesis | (2) Collagen (type IV and type XIII) | |
| (1) Phospholipid scramblase | ||
| Energy production and conversion | (1) Voltage-gated shaker-like K+ channel | |
| Secondary metabolites biosynthesis, transport and catabolism | (2) Alpha-aminoadipate reductase | (1) Beta-carotene 15'-dioxygenase |
| (1) Flavin-containing monooxygenase | ||
| Cytoskeleton | (1) Projectin | (1) Rho GTPase effector BNI1 |
| Transport and metabolism | (4) Ion channels | (2) Lipase |
| (5) Permeases | (1) 3-oxoacyl CoA thiolase | |
| (1) Monocarboxylate transporter | (2) Gamma-glutamyltransferase | |
| (1) Protein kinase | (1) dUTPase | |
| (2) Acyl-CoA-binding protein | (1) Nucleoside transporter | |
| (1) 3-oxoacyl CoA thiolase | (1) Permease | |
| (3) Glutamate synthase | (1) Monocarboxylate transporter | |
| (2) β-1, 6-N-acetylglucosaminyltransferase | (2) β-1, 6-N-acetylglucosaminyltransferase | |
| (2) Chitinase | (1) Cytochrome c oxidase | |
| 1) Glycoside hydrolase/ deacetylase | (2) Dihydrolipoamide acetyltransferase | |
| (2) Mitochondrial carrier | ||
| (2) Dihydrolipoamide acetyltransferase | ||
| (1) NADH dehydrogenase | ||
| (7) ATP synthase | ||
| (4) F0F1-type ATP synthase, beta subunit | ||
| (1) NADH-ubiquinone/plastoquinone oxidoreductase | ||
| Other functions | (10) Reverse transcriptase | (1) Phospholipase D1 |
| (14) Transposon-encoded protein | (3) Reverse transcriptase | |
| (2) Exonuclease | (4) Transposon-encoded protein | |
| (17) Zn-finger protein | (7) Zn-finger protein | |
| (1) UV radiation resistance associated protein | (1) Monodehydroascorbate/ferredoxin reductase | |
| (10) Endonuclease | (1) Transferrin receptor | |
| (1) Phospholipase D | (1) Thiopurine S-methyltransferase activity | |
| (1) Carbamoyl phosphate synthetase | ||
| (1) Hypothetical transmembrane drug transporter | ||
| (1) Hypothetical transcriptional activator of glycolytic enzymes |