wiki:OrthologInventoriesNoPom

Version 25 (modified by vw253, 6 years ago) (diff)

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Known pombe gene losses

misc

  • YAT1 YAR035W carnitine O-acetyltransferase
  • CYS4 YGR155W cystathionine beta-synthase
  • TAZ1 YPR140W TAfaZzin
  • YJL055W involved in the metabolism of purine and pyrimidine base analogues
  • HMO1 YDR174W rDNA-binding component of the Pol I transcription system
  • YPC1 YBR183W
  • HHO1 YPL127C histone H1
  • STE18 YJR086W gamma subunit of G protein
  • PDE2 YOR360C high affinity 3',5'-cAMP phosphodiesterase
  • KXD1 YGl079W
  • ALM1 YGR071C adenine methyltransferase, has human, no pombe http://pfam.xfam.org/family/PF10237?type=Family#tabview=tab7
  • OGG1 YML060W CBF3 complex base excision repair protein (conserved in human)

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

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

  • 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) PSIBLASTING!!!!!!
  • 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