Table 2 Abundance of biased regions that have biases at the same level as the Q and N biases in the four budding-yeast prions

Rank

Budding yeast

Fission yeast

Fruit fly

Nematode

Arabidopsis

Human

1

S

108 [1]^†

S

74

Q

725 (20.7)

P

494

P

345

P

549

2

Q

104 [8] (17.8)

P

40

G

400

G

448

E

292

E

322

3

N

73 [1] (12.5)

E

37

P

359

E

286

G

242

C

302

4

E

68 [18]

T

32

S

327

Q

270 (8.9)

Q

153 (6.0)

G

294

5

T

58

Q

17 (5.6)

A

264

C

220

C

150

S

233

6

P

37 [1]

G

17

H

231

T

199

S

134

K

188

7

D

35

K

16

E

212

K

184

D

90

Q

176 (5.9)

8

K

24 [9]

A

15

T

188

S

146

K

86

A

136

9

G

20

C

13

K

170

R

132

R

81

R

83

10

A

19 [1]

R

11

N

144 (4.1)

A

102

L

56

H

80

11

H

8

V

6

C

144

D

55

A

56

T

59

12

C

8

H

6

R

118

H

46

H

47

D

49

13

R

6

M

5

D

74

N

40 (1.3)

Y

28

L

31

14

M

5

N

4 (1.3)

L

47

F

17

N

28 (1.1)

M

23

15

L

5

F

4

Y

28

Y

16

T

17

F

21

16

V

3

L

3

M

24

M

15

M

11

V

18

17

Y

2

D

2

V

22

L

11

V

8

N

15 (0.6)

18

F

2

Y

1

F

8

V

6

W

5

Y

13

19

W

0

W

0

W

5

I

5

F

3

W

11

20

I

0

I

0

I

5

W

1

I

1

I

10

Total

585

Total

303

Total

3,495

Total

2,693

Total

1,833

Total

2,613

(b) Biases in terms of total number of residues^‡

Rank

Budding yeast

Fission yeast

Fruit fly

Nematode

Arabidopsis

Human

1

S

10,630

S

9,035

Q

39,186 (16.3)

P

31,917

E

23,229

P

44,427

2

T

5,900

T

5,805

S

31,936

E

31,216

P

21,124

E

27,352

3

E

4,704

P

2,887

P

29,345

G

28,192

G

13,462

S

26,363

4

Q

3,924 (10.4)

E

2,657

G

24,320

Q

18,126 (8.9)

S

10,313

G

22,131

5

N

3,745 (10.0)

A

1,854

E

23,384

T

15,994

L

9,459

C

16,681

6

P

2,049

G

1,669

A

14,730

S

15,262

C

6,852

K

15,459

7

K

1,910

C

1,185

K

14,448

C

15,224

Q

6,835 (6.0)

Q

12,156 (5.9)

8

D

1,292

Q

1,107 (3.6)

T

12,560

K

14,518

K

6,122

A

9,587

9

G

961

L

1,087

C

10,067

A

9,124

R

4,061

T

5,667

10

A

916

V

851

L

9,331

R

7,501

A

3,244

L

5,646

11

L

554

K

680

R

6,847

D

6,950

D

3,176

R

5,165

12

C

256

N

486 (1.6)

H

6,302

N

2,606 (1.3)

Y

2,315

H

3,189

13

R

204

R

425

D

5,695

H

2,361

N

1,259 (1.1)

V

2,964

14

H

195

F

257

N

5,690 (2.4)

L

1,352

H

1,044

D

2,085

15

M

163

H

238

V

2,651

F

827

T

697

N

1,714 (0.8)

16

F

94

M

217

Y

1,179

M

746

V

549

F

1,433

17

V

90

D

127

M

915

Y

692

M

287

M

1,081

18

Y

33

Y

60

I

798

V

608

F

221

I

924

19

W

0

I

0

F

667

I

404

W

162

Y

617

20

I

0

W

0

W

147

W

42

I

16

W

541

Total

37,620

Total

30,627

Total

240,198

Total

203,662

Total

114,427

Total

205,182

(c) Ratios of numbers for Q-rich and N-rich biased regions compared to the ratios of their overall abundances as residues^§

Budding yeast

Fission yeast

Fruit fly

Nematode

Arabidopsis

Human

R_Q/N (total residues)

1.05

2.28

6.89

6.96

5.43

7.09

R_Q/N (total regions)

1.42

4.25

5.03

6.75

5.46

11.73

Q/N (composition)

(0.039/0.061) = 0.64

(0.038/0. 052) = 0.73

(0.052/0 .047) = 1.12

(0.041/ 0.049 = 0.83

(0.035/ 0.044 = 0.79

(0.047/ 0.037 = 1.28