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. 2024 Mar 6;14(4):101. doi: 10.1007/s13205-024-03942-7

Table 2.

Interactive residues and bonding nature of ligand isolated from PRME against OCN protein

Sl No PubChem ID Binding Energy (Kcal/Mol) Interacting Residues Bond Distance Nature of Bonding
1 8468 (Vanillic acid) -6.5644

B:ARG310:NH1—8468:O3

A:GLN77:HE22—8468:O2

D:DT427:H3'—8468:O2

A:ALA56:HA—8468:O4

8468:H16—8468:O2

8468:H17—A:SER51:OG

A:PHE58—8468

8468—A:ALA56

5.54422

2.4914

2.5872

2.0976

1.92944

2.7905

4.3633

3.60906

Electrostatic

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrophobic

Hydrophobic

2 73,160 (Catechin) 37.2972

73,160:H24—D:DT427:O5'

73,160:H26—C:DG412:N3

C:DG412:H4'—73,160:O6

D:DT427:H4'—73,160:O1

C:DA413 – 73,160

3.01151

2.39609

2.95116

2.06376

5.59696

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrophobic

3 25,200,612 (Ergost-4-en-3-one) 46.5173

A:HIS75:HD1—25,200,612:O1

A:HIS75:HE1—25,200,612:O1

A:ALA56—25,200,612:C28

A:ALA56—25,200,612:C29

B:LEU295—25,200,612

B:LYS303—25,200,612

25,200,612:C20—B:ARG302

25,200,612:C20—B:LYS303

25,200,612:C27—B:ARG302

25,200,612:C27—B:MET306

25,200,612:C28—B:MET306

25,200,612:C29—A:LEU57

25,200,612:C29—B:MET306

A:PHE58—25,200,612:C14

2.27374

3.06936

3.17387

4.40991

4.91908

5.42733

4.8078

4.30829

4.05717

4.70663

4.47031

5.30964

4.59387

4.88684

Hydrogen Bond

Hydrogen Bond

Hydrophobic

Hydrophobic

Hydrophobic

Hydrophobic

Hydrophobic

Hydrophobic

Hydrophobic

Hydrophobic

Hydrophobic

Hydrophobic

Hydrophobic

Hydrophobic

4

2088

(Alendronic acid)

-25.4610

C:DG412:H22—2088:O6

C:DG412:H22—2088:O9

2088:H16—C:DA413:O4'

2088:H20—D:DT428:O4'

2088:H21—C:DT411:O2

2088:H21—D:DT427:O2

C:DG412:H4'—2088:O4

C:DG412:H1'—2088:O9

D:DA426:H2—2088:O6

2088:H27—C:DT411:O2

2.43994

2.57252

2.10275

1.98272

2.30904

1.98139

2.31342

2.6587

2.9243

2.45617

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond

Hydrogen Bond