Conservation and specificity of tandem gene arrays (TGAs)

 

protein_family

ZYRO

KLTH

SAKL

KLLA

ERGO

short description

 

 

 

 

 

 

Conserved, syntenic TGAs

GL3C0004  (TGA #1)

2

2

4

2

2

similar to SACE YEL063C CAN1 Plasma membrane arginine permease and SACE YNL268W LYP1 Lysine permease 

GL3C0004  (TGA #2)

2

2

3

2

3

similar to SACE YKR039W GAP1 General amino acid permease and YDR508C GNP1 High-affinity glutamine permease

GL3C0007  (TGA #1)

4

2

2

1+p

 

similar to SACE YNL065W AQR1 Plasma membrane transporter of the major facilitator superfamily ; YIL121W QDR2 Multidrug transporter ; YBR008C FLR1 Plasma membrane multidrug transporter member of the major facilitator superfamily

GL3C0007  (TGA #2)

 

 

2

 

2

highly similar to SACE YNR055C

GL3C0014

2

2

2

2

 

similar to SACE YMR170C ALD2 Cytosolic aldehyde dehydrogenase; YMR170c ALD5 ; YMR169c ALD4

GL3C0019

 

2

2

 

2

highly similar to SACE YDL192W ARF1 and YDL137W ARF2,  ADP-ribosylation factor GTPases of the Ras superfamily

GL3C0047 (1)

2

2

2

2

2

similar to SACE YOR130C ORT1 Ornithine transporter of the mitochondrial inner membrane; weakly similar to SACE YEL006W Hypothetical ORF

GL3C0073

2

 

 

 

2

similar to SACE YOL119C MCH4 Protein with similarity to mammalian monocarboxylate permeases

GL3C0142

3

3

2

3

2

similar to SACE YKL164C PIR1 Protein containing tandem internal repeats

GL3C0156

 

2

2

2

 

weakly similar to SACE YJR061W; YKL201C MNN4 Putative positive regulator of mannosylphosphate transferase

GL3C0177

 

2

2

2

 

similar to SACE YLR414C; weakly similar to YKL187C and YLR413W

GL3C0235 (2)

3

3

3

 

 

some similarities with SACE YOL048c and YAL018c

GL3C0480

2

2

2

2

2

similar to SACE YPL129W TAF14 Subunit of TFIID, TFIIF and SWI/SNF complexes of trancription

GL3C0507

 

 

2

2

 

some similarities with SACE YDR003W

GL3C2661 (3)

2

2

2

2

2

similar to SACE YAR018C KIN3 Nonessential protein kinase; YAR019C CDC15 Protein kinase of the Mitotic Exit Network

GL3R0042

 

2

2

2

2

similar to SACE YMR307W GAS1 Beta-1.3-glucanosyltransferase

GL3R0210

2

 

 

2

 

similar to SACE YMR222C FSH2 Serine hydrolase

GL3R0439

2

2

2

2

2

similar to SACE YOR285W; YOR286W FMP31

 

 

 

 

 

 

 

Conserved TGAs  without clearcut syntenic conservation

GL3C0002

2

2

2

 

3

similar to SACE High-affinity and low-affinity glucose transporters of the major facilitator superfamily

GL3C0003

2

2

2

 

2

similar to SACE YPR165W RHO1 GTP-binding protein

GL3C0005

2

2

2

2

 

similar to SACE YAL060W BDH1 NAD-dependent (2R 3R)-2 3-butanediol dehydrogenase; YAL061W putative polyol dehydrogenase; YMR152W; YNL134C; YMR083W ADH3

GL3C0009

 

2

2

 

 

similar to SACE YPR198W SGE1 Member of drug-resistance protein family

GL3C0012

5

 

 

 

2

similar to SACE YIL015W BAR1 Aspartyl protease; YLR121C YPS3 Aspartic protease; YLR120C YPS1 Aspartic protease; YDR144C MKC7 GPI- anchored aspartyl protease (yapsin) ; YIR039C YPS6 Putative GPI-anchored aspartic protease; YPL154C (PEP4)

GL3C0018  (TGA #1)

 

 

2

3

3

Similar to SACE YAL051W (OAF1) and YOR363C (PIP2)

GL3C0018  (TGA #2)

 

 

2

 

 

Similar to SACE YAL051W (OAF1) and YOR363C (PIP2)

GL3C0018  (TGA #3)

 

 

2

 

 

Similar to SACE YAL051W (OAF1) and YOR363C (PIP2)

GL3C0025  (TGA #1)

3

 

2

2

2

similar to SACE YDR011W SNQ2 ABC transporter; YOR153W PDR5 Short-lived membrane ABC transporter; YDR406W PDR15 ABC transporter

GL3C0025  (TGA #2)

2

 

 

 

 

highly similar to SACE YPL058C PDR12 ABC transporter

GL3C0028

2

2

2

2

2

similar to SACE YPR119W CLB2  B-type cyclin and YGR108W CLB1; YPR120C CLB5 B-type cyclin  and YGR109C CLB6

GL3C0031 (6)

 

1+p

2

 

 

weakly similar to SACE YHL048W COS8

GL3C0031 (6)

2

1+p

2

 

 

weakly similar to SACE YGR295C COS6; some similarities with SACE YFL062W COS4

GL3C0031 (6)

 

4

 

 

 

some similarities with SACE YKL219W COS9

GL3C0031 (6)

 

1+p

 

 

 

weakly similar to SACE YFL062W COS4

GL3C0031 (6)

 

1+p

 

 

 

weakly similar to SACE YML132W COS3

GL3C0031 (6)

 

1+p

1+p

 

 

weakly similar to SACE YNL336W COS1 and YJR161C COS5

GL3C0031 (6)

 

1+p

2

 

 

some similarities with SACE YNL336W COS1 and YJR161C COS5

GL3C0039

1+p

 

4

 

 

weakly similar to SACE YOR381W FRE3 Ferric reductase; YOR384W FRE5 Putative ferric reductase

GL3C0080

2

2

 

 

 

highly similar to SACE YHR179W OYE2 NADPH oxidoreductase

GL3C0170

 

2

2

2

2

some similarities with SACE YJL079C PRY1 and YKR013W PRY2,  proteins of unknown function

GL3C0377

2

 

1+p

 

 

similar to SACE YKL222C and YOR172W

GL3C0443 (4)

3

2

2

 

4

some similarities with SACE YKL096W CWP1 Cell wall mannoprotein

GL3C0536

 

2

2

 

 

some similarities with SACE YIL119C RPI1 Putative transcriptional regulator

GL3M4590 (5) (6)

 

1+p

 

2

2

some similarities with SACE YAR050W FLO1 Lectin-like protein; YAL063C; YHR211W FLO5

GL3M4590 (5) (6)

 

1+p

 

 

 

some similarities with SACE YAR050W FLO1 Lectin-like protein involved in flocculation

GL3R0054

2

 

 

2

1+p

similar to SACE YJL212C OPT1 Plasma membrane transporter; YPR194C OPT2 Oligopeptide transporter

GL3R0082

2

 

 

2

 

similar to SACE YDR384C ATO3 Plasma membrane protein; YCR010C ADY2 and YNR002C FUN34, members of the TC 9.B.33 YaaH family of putative transporters

GL3R0103

1+p

 

2

 

 

similar to SACE YMR008C PLB1 Phospholipase B (lysophospholipase)

 

 

 

 

 

 

 

Species-specific TGAs

GL3C0684

1

 

 

 

 

conserved hypothetical protein

GL3R0233

2

 

 

 

 

no similarity

GL3R0426

2

 

 

 

 

similar SACE YER175C TMT1 Trans-aconitate methyltransferase

GL3C3802

2

 

 

 

 

some similarities with SACE YML111W BUL2 Component of the Rsp5p E3- ubiquitin ligase complex

GL3R0461

2

 

 

 

 

similar to SACE YPR159W KRE6 Protein required for beta-1 6 glucan biosynthesis

GL3C0670

2

 

 

 

 

similar to SACE YBR229C ROT2 Glucosidase II catalytic subunit

GL3R3311

2

 

 

 

 

similar to SACE YBR058C-A  TSC3 involved in sphingolipid biosynthesis

GL3C0695

2

 

 

 

 

some similarites with SACE YMR043W MCM1 Transcription factor

GL3C0470

2

 

 

 

 

weakly similar to SACE YOR385W

GL3C3673

2

 

 

 

 

some similarities with SACE YIR019C MUC1 GPI-anchored cell surface glycoprotein

GL3C0501

2

 

 

 

 

similar to SACE YOR180C DCI1 Peroxisomal delta(3 5)-delta(2 4)-dienoyl-CoA isomerase

GL3C0141

2

 

 

 

 

similar to SACE YPL140C MKK2 Mitogen-activated kinase kinase

---

2

 

 

 

 

no similarity

GL3R0233

3

 

 

 

 

no similarity

GL3R3887

 

1

 

 

 

conserved hypothetical protein

---

 

1

 

 

 

no similarity

GL3C0196

 

2

 

 

 

similar to SACE YER062C HOR2 and YIL053W RHR2, two redundant DL-glycerol-3-phosphatases

GL3C3719

 

2

 

 

 

conserved hypothetical protein

GL3R0092

 

2

 

 

 

weakly similar to SACE YDL078C MDH3 Cytoplasmic malate dehydrogenase

GL3C0059

 

2

 

 

 

no similarity

GL3R4018

 

3

 

 

 

no similarity

GL3R3887

 

3

 

 

 

conserved hypothetical protein

GL3C0078

 

5

 

 

 

some similarities with SACE YBL017C PEP1 Type I transmembrane sorting receptor ; YJL222W

GL3R2229

 

 

1

 

 

similar to SACE YCR046C IMG1 Mitochondrial ribosomal protein

GL3R3075

 

 

1

 

 

conserved hypothetical protein

GL3R2318

 

 

2

 

 

similar to SACE YGL067W NPY1 NADH diphosphatase

GL3C0179

 

 

2

 

 

similar to SACE YMR234W RNH1 Ribonuclease H1

GL3C0482

 

 

2

 

 

similar to SACE YJL171C

GL3C3800

 

 

2

 

 

similar to SACE YJL151C SNA3 Integral membrane protein

GL3C4417

 

 

2

 

 

no similarity

GL3C0410

 

 

2

 

 

weakly similar to Candida glabrata CAGL0B02926g

GL3C0193

 

 

2

 

 

some similarities with SACE YER057C HMF1 Member of the p14.5 protein family

GL3C0110

 

 

2

 

 

similar to SACE YBL042C FUI1 High affinity uridine permease

GL3M4603 (7)

 

 

2

 

 

weakly similar to SACE YPR015C

GL3C0220

 

 

2

 

 

highly similar to SACE YBR299W MAL32 Maltase (alpha-D-glucosidase)

GL3C3541

 

 

2

 

 

conserved hypothetical protein

GL3C0110

 

 

2

 

 

highly similar to Kluyveromyces lactis KLLA0C19415g; similar to SACE YOR192C

GL3C0368

 

 

2

 

 

highly similar to Kluyveromyces lactis KLLA0A03553g;  similar to SACE YAL046C

GL3C4478

 

 

3

 

 

some similarities with SACE YJL047C RTT101 Cullin family member subunit of a complex containing ubiquitin ligase activity

GL3R0920

 

 

 

1

 

conserved hypothetical protein

GL3R1456

 

 

 

2

 

some similarities SACE YGR268C  HUA1

GL3C3203

 

 

 

2

 

some similarities with SACE YGL262W

GL3C3205

 

 

 

2

 

some similarities with SACE YBR250W

GL3C0667

 

 

 

2

 

some similarities with SACE YDR514C

GL3R0524

 

 

 

2

 

highly similar to SACE YDR533C

GL3R0152

 

 

 

2

 

similar to  SACE YNL142W MEP2 Ammonium permease

GL3C0055

 

 

 

2

 

similar to SACE YGL039W; YGL157W; YOL151W; YDR541C NADPH- dependent Oxidoreductases

GL3C1579

 

 

 

2

 

some similarities with SACE YMR265C

GL3C4098

 

 

 

2

 

some similarities with ACE YKL096W CWP1 Cell wall mannoprotein

GL3C0369

 

 

 

2

 

similar to SACE YJL092W HPR5 DNA helicase

GL3C0011

 

 

 

2

 

highly similar to SACE YGL008C PMA1 Plasma membrane H -ATPase

GL3C0001

 

 

 

2

 

similar to SACE YDR243C PRP28 RNA helicase in the DEAD-box family; YGL078C DBP3 Putative ATP-dependent RNA helicase of the DEAD-box family

GL3C3549

 

 

 

2

 

some similarities with  SACE YOR383C

GL3R0782

 

 

 

 

2

Similar to SACE YDL237W

GL3C4074

 

 

 

 

2

No homolog in SACE

GL3R0860

 

 

 

 

2

Similar to SACE YLR215C CDC123

GL3C0306

 

 

 

 

2

Similar to SACE YGL246C RAI1

GL3C0190

 

 

 

 

2

Similar to SACE YJL172W CPS1

GL3C1032

 

 

 

 

2

Similar to SACE YCL057W PRD1

GL3C4268

 

 

 

 

2

No homolog in SACE

GL3R0174

 

 

 

 

3

Similar to SACE YMR238W DFG5

GL3R0084

 

 

 

 

3

Similar to SACE YJR107W

GL3C0008

 

 

 

 

4

Similar to SACE YIR035C; YIR036C

 

The table indicates, for each yeast species (columns 2-6), the number of genes present in each TGA (p: pseudogene). TGAs were classified according to protein families and conserved synteny. Additional family relationships are: (1) members in GL3C0486 family; (2) members in GL3C4053 family; (3) members in GL3C2716 family; (4) members in GL3C4401, GL3U4586, GL3M4608 and GL3M4617 families; (5) members in GL3C3528 and GL3M4610 families; (6) complex subtelomeric locations; (7) members in GL3C3788 family.