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Table 2 Effect of using multiple conformers per compound on 3-D neighboring.

From: PubChem3D: Similar conformers

 

Diverse Conformer Count

 

1

3

5

7

10

Average Query Conformers per compound

1.0

2.7

4.1

5.4

7.2

Average Search Conformers per compound

1.0

3.0

4.9

6.7

9.4

Total Compound Pairs (billions)

110

110

110

110

110

Total Conformer Pairs (billions)

110

866

2,200

4,010

7,510

Conformer Pairs per Compound Pair

1.0

7.9

20.0

36.4

68.1

Total 3-D Compound Neighbors (millions)

1.82

3.75

5.06

6.02

7.05

Total 3-D Conformer Neighbors (millions)

1.82

6.06

10.75

15.50

22.33

Ratio of Conformer/Compound Neighbors

1.0

1.6

2.1

2.6

3.2

Average Compound 3-D Neighbors per Compound

432

889

1,200

1,428

1,673

Average Conformer 3-D Neighbors per Conformer

432

541

621

677

734

Total Search Time (days)

8.2

68.5

163.1

296.9

564.9

  1. Growth of unique 3-D neighbors as a function of diverse conformer count for the 4,218 chemical structures (Query) with known biological function when neighbored against the entire "live" PubChem3D contents (Search) of 26,157,365 small molecules.