Research Article

In Silico Identification of Potent PPAR- Agonists from Traditional Chinese Medicine: A Bioactivity Prediction, Virtual Screening, and Molecular Dynamics Study

Table 2

H-bond occupancy for key residues of PPAR- protein with top three candidates and T2384 overall 40 ns molecular dynamics simulation.

Name H-bond interaction Occupancy

T2384Tyr327:HH/O208.70%
Tyr327:OH/H405.55%
Lys367:HZ3/O2039.30%
Lys367:HZ3/O210.75%

5-Hydroxy-L-tryptophanCys285:O/H211.30%
Ser289:HG1/N77.05%
Ser289:OG/H260.15%
Ser289:OG/H2114.54%
Tyr327:HH/O135.25%
Tyr327:HH/O144.55%
Lys367:HZ3/O1349.93%
Lys367:HZ3/O140.90%
His449:HE2/O147.60%

AbrineCys285:O/H301.00%
Ser289:HG1/N71.45%
Ser289:OG/H223.00%
Ser289:OG/H3090.05%
Tyr327:HH/O1483.15%
Lys367:HZ3/O1341.15%
Lys367:HZ3/O1437.75%

Saussureamine CSer289:HG1/O2332.40%
Ser289:HG1/O2430.05%
Tyr327:HH/O144.95%
Tyr327:HH/O236.20%
Tyr327:HH/O2414.65%
Tyr327:HH/O286.60%
Tyr327:OH/H526.65%
Lys367:HZ3/O232.65%
Lys367:HZ3/O242.70%
His449:HE2/O1414.65%
His449:HE2/O243.50%
His449:HE2/N273.90%
His449:HE2/O2877.60%
Leu476:OT1/H5013.85%
Leu476:OT2/H507.00%

H-bond occupancy cutoff: 0.3 nm.