Version 29 (modified by 7 years ago) (diff) | ,
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Known pombe gene losses
misc
- YAT1 YAR035W carnitine O-acetyltransferase (conserved in human, CPT2)
- CYS4 YGR155W cystathionine beta-synthase (conserved in human, CBS)
- TAZ1 YPR140W TAfaZzin (conserved in human , TAZ)
- YPC1 YBR183W paralog YDC1 (conserved in human ACER3)
- YDC1 YPL087W paralog YPC1 (conserved in human ACER3)
- HHO1 YPL127C histone H1 (conserved in human H1F0)
- AML1 adenine methyltransferase, has human, (conserved in human N6AMT2) http://pfam.xfam.org/family/PF10237?type=Family#tabview=tab7
- STE18 YJR086W gamma subunit of G protein (check)
- PDE2 YOR360C high affinity 3',5'-cAMP phosphodiesterase
- KXD1 YGl079W
- OGG1 YML060W "CBF3 complex" base excision repair protein (conserved in human)
YGR071C
Glycogen metabolism
- GLC3 YEL011W glycogen branching enzyme
- GDB1YPR184W glycogen debranching enzyme
- GPH1, YPR160W glycogen debranching enzyme
- GPH1 YPR160W Glycogen PHosphorylase
- GDB1,
- GLG1,
- GLG2,
- GSY1,
- GSY2,
- FPS1
Mitochondrial
- COX23 yhr116w http://www.pantherdb.org/panther/family.do?clsAccession=PTHR13626 (has human)
- TOM6 (small) this paper links budding yeast to human, no pombe yet http://www.ncbi.nlm.nih.gov/pubmed/18331822
Tryptophan degradation/ de novo NAD biosynthesis
- BNA1 YJR025c tryptophan met 3-hydroxyanthranilate 3,4-dioxygenase activity
- BNA2 YJR078W tryptophan 2,3-dioxygenase activity
- BNA4 YBL098W tryptophan met kynurenine 3-monooxygenase
- BNA5 YLR231C tryptophan met kynureninase
- BNA6 YFR047C biosynthesis of NAD from tryptophan via kynurenine
peroxisomal proteins and components of the fatty acid oxidation pathway
- PEX8
- PEX21
- PXA2
- FOX1
- FOX3
- SPS19
- DCI1
- ECI1
- FAA2
- TES1
- CAT2
- EEB1 YPL095c medium-chain fatty acid ethyl ester biosynthesis during fermentation
- EHT1 YBR177c medium-chain fatty acid metabolic process
- YMR210w medium-chain fatty acid metabolic process
Autophagy and vesicle transport
- CNL1 YDR357C
- ATG21 YPL100W
- ATG23 YLR431C
- ATG27 YJL178C
- SRN2 YLR119W Component of the ESCRT-I complex
biotin synthesis enzymes
- BIO4
- BIO3
- + one?
TMA
- TMA7,10,16,17,20,24,64,108
May be conserved but not yet detected
- YJL055W involved in the metabolism of purine and pyrimidine base analogues
- YDl156W (WD repeat)
- YGR008C
- FUN26 YAL022C
- DLS1 YJL065C DSL1 complex
- ITC1 YGL133W CHRAC complex
- ISW1 YBR245C isw1-a complex
- ISW2 YOR304W CHRAC complex
- HPA2 YPL123C
- MGR1 YCL044C iAAA protease complex subunit (saccharomycetes only)
- RSF1 YMR030W (yeast only)
- AIM23 YJL131C? mitochondrial IF3 (saccharomycetes only) http://pfam.xfam.org/family/PF14877?type=Family#tabview=tab7
- SPP381 YBR152W (ascomycota only)
- SHE1 YBL031W (ascomycota only)
- NTC20 YBR188C (ascomycota only)
- UTP8 YGR128C http://pfam.xfam.org/family/PF10395?type=Family#tabview=tab7 (ascomycota only)
- NVJ1 YHR195W nuclear envelope protein (saccharomycetes only) (confirmed with PSI-blast)
- VID22 YLR373C is paralog of ENV11 (ascomycota only)
- ENV11 YGR071C is paralog of VID22 (ascomycota only)
- there are also 64 essential genes in budding yeast which do not appear to have a fission yeast ortholog
Examples of distant orthologs not picked up by most ortholog predictors
- Sfr1 / MEI5 http://pfam.sanger.ac.uk/family/PF10376 (conserved to human)
- Rum1 / SIC1
- ipk1 / IPK1 (orthoMcl only)
- orc6 / ORC6 pfam.sanger.ac.uk/family/PF05460
- APC13 / YDR260C http://pfam.sanger.ac.uk/protein/O74358
- SPCC622.10c -> A. gossypii AGL158C (fasta) which is is syntentic ortholog of S. cerevisiae YDR166C
- rrn10/ RRN10 (small) (fungal only) http://pfam.sanger.ac.uk/family/PF05234
- SPCC553.01c/ YGR042W (to human) http://pfam.sanger.ac.uk/family/PF10382
- Sds3 /YIL084C (KOGS only) http://pfam.sanger.ac.uk/family/PF08598
- Swi5/SAE3 http://pfam.sanger.ac.uk/family/PF07061
- Sus1/SUS1 (OrthoMcl? only) http://pfam.sanger.ac.uk/family/PF10163
- Mediator complex subunits (add details)
- Atp15/ATP15 (KOGS only) http://pfam.sanger.ac.uk/family/PF04627
- SPCC297.06c / YKL142W http://pfam.sanger.ac.uk/family/PF07957
- See also ortholog table releases