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Table 2 Number of RMSD computations for the semfold decoy dataset.

From: Fast structure similarity searches among protein models: efficient clustering of protein fragments

Decoy set

This work

N N - 1 2

ratio

1ctf

11,753,426

64,997,101

0.18

1e68

9,039,397

64,541,841

0.14

1eh2

7,332,361

65,453,961

0.11

1khm

22,047,014

222,193,740

0.10

1nkl

7,966,008

67,995,291

0.12

1pgb

13,465,834

63,636,121

0.21

Total

71,604,689

548,818,055

0.13

  1. For this table the RMSD threshold was 3.0 Å.
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Algorithms for Molecular Biology

ISSN: 1748-7188