Table 1

Amino acid sequence diversity of proteomes and libraries

Average diversity per position

Diversity per 12-mer

Functional diversity (# of equally probable sequences)

Proteomes:

Human

0.85

0.14

5.73 × 10¹⁴

E. coli

0.82

0.09

3.69 × 10¹⁴

Phage-displayed libraries:

T7 Trinuc

0.91

0.32

1.31 × 10¹⁵

T7 NNK

0.85

0.14

5.73 × 10¹⁴

M13 NNK

0.68

0.01

4.10 × 10¹³

In silico libraries:

20 codon (trinucleotide)

1.00

1.00

4.10 × 10¹⁵

32 codon (reduced)

0.83

0.11

4.51 × 10¹⁴

61 codon (standard)

0.79

0.06

2.46 × 10¹⁴

Populations of random 12-mer peptides from the human and E. coli proteomes and from computationally-random in silico libraries were collected as previously described and were subjected to diversity analysis by the DIVAA program of the RELIC web server [4]. DIVAA-generated positional diversity estimates were utilized to calculate the average positional diversity estimates for the peptide populations. Diversity per 12-mer was determined by raising the average positional diversity to the twelth-power. Functional diversity [6] was estimated by multiplying the diversity per 12-mer by the total number of possible sequences (20¹² for a 12-mer peptide population). Portions of this table were reproduced with kind permission from Wiley-VCH Verlag GmbH & Co. KGaA, see acknowledgements section for details.

Krumpe et al. BMC Biotechnology 2007 7:65   doi:10.1186/1472-6750-7-65