Distribution of Protein Folds in the Three Superkingdoms of Life

Table 2.

Fold Assignment in Complete Proteomes

Species No. of proteins Automatically predicted Total predicted False negatives False positives No. of recognized folds
M. genitalium 467 159 182 39.0% 24 13.2% 1 0.6% 81
M. pneumoniae 677 173 197 29.1% 26 13.2% 2 1.2% 84
B. burgdorferi 1,256 216 241 19.2% 32 13.3% 7 3.2% 94
A. aeolicus 1,521 481 530 34.8% 53 10.0% 4 0.8% 108
H. pylori 1,565 343 392 25.0% 50 12.8% 1 0.3% 112
H. influenzae 1,717 506 555 32.3% 53 9.5% 4 0.8% 144
Synechocystissp. 3,169 826 894 28.2% 72 8.1% 4 0.5% 151
B. subtilis 4,099 1021 1124 27.4% 115 10.2% 12 1.2% 165
E. coli 4,289 1104 1212 28.3% 136 11.2% 28 2.5% 175
M. jannaschii 1,770 389 439 24.8% 56 12.8% 6 1.5% 98
M. thermoautotrophicum 1,893 459 509 26.9% 54 10.6% 4 0.9% 103
A. fulgidus 2,407 608 679 28.2% 75 11.0% 4 0.7% 112
S. cerevisiae 6,529 1462 1575 24.1% 148 9.4% 35 2.4% 165
C. elegans 13,743 2831 2831 20.6% N/A N/A N/A N/A 172

  • (N/A) Not applicable.

  • ↵Percentage of total prediction is indicated relative to the proteome size.

  • ↵Percentage of false negatives is indicated relative to total prediction figures

  • ↵Percentage of false positives is indicated relative to automatic prediction figures.

This Article

  1. Genome Res. 9: 17-26

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