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Table 4 Comparison of clusters of AdK to known intermediates

From: Detecting intermediate protein conformations using algebraic topology

PDB

Isomap closest clust. (RMSD)

PCA closest clust. (RMSD)

1E4Y

Clust 1 (1.7Å)

Clust 1 (2.1Å)

1AK2

Clust 2 (3.5Å)

Clust 1 (4.1Å)

1DVR

Clust 2 (2.6Å)

Clust 1 (2.8Å)

2RH5A

Clust 6 (2.2Å)

Clust 3 (2.5Å)

2RH5B

Clust 6 (2.3Å)

Clust 3 (2.4Å)

2RH5C

Clust 6 (3.0Å)

Clust 3 (3.1Å)

  1. For every known intermediate, the RMSD to the closest cluster is shown. The cluster numbers are as in Fig. 2