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Table 1 Amino acid propensities in PrD and PrD-cores

From: Discovering putative prion sequences in complete proteomes using probabilistic representations of Q/N-rich domains

Residue

Prion domains

Prion domain (Library 1)

 

Odds ratio

LOr

Odds ratio

LOr

A

0.675

−0.568

0.670

−0.578

C

0.071

−3.807

1.520

0.604

D

0.352

−1.507

0.280

−1.837

E

0.147

−2.766

0.550

−0.862

F

0.718

−0.478

2.310

1.208

G

1.028

0.040

0.960

−0.059

H

0.913

−0.131

0.760

−0.396

I

0.350

−1.515

2.260

1.176

K

0.271

−1.883

0.210

−2.252

L

0.340

−1.556

0.960

−0.059

M

1.125

0.170

1.960

0.971

N

5.700

2.511

1.080

0.111

P

1.170

0.227

0.300

−1.737

Q

4.125

2.044

1.070

0.098

R

0.436

−1.196

0.670

−0.578

S

1.662

0.733

1.140

0.189

T

0.830

−0.268

0.890

−0.168

V

0.304

−1.716

2.260

1.176

W

0.091

−3.459

1.950

0.963

Y

1.724

0.786

2.180

1.124

  1. The observed frequencies of occurrence of the different amino acid residues were transformed into the corresponding statistical potentials using the equation described in Methods. Columns 2 and 3 show the calculated odds-ratio for the complete prion and the statistical potentials corresponding to the odds-ratios of PrD respectively (LOr). Columns 4 and 5 contain the ratio and log-odds obtained experimentally by means of a random mutagenesis assay with the library 1, as described in the paper by Toombs et al. [30].
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BMC Genomics

ISSN: 1471-2164

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