Molecular metrics status: done
Cached molecular metrics are available for this pose.
Metrics cached · SASA missing
py3Dmol interaction viewer
Left: interactive complex viewer. Right: clickable PLIP-like interaction summary. Clicking an interaction thickens and highlights it in the 3D view.
Molecular report
Reject
Multiple quality flags — this pose should be deprioritised or discarded.
✓ Excellent LE (-0.464 kcal/mol/HA)
✓ Good fit quality (FQ -4.88)
✓ Strong H-bond network (6 bonds)
✗ Very high strain energy (45.6 kcal/mol)
✗ Geometry warnings
ℹ SASA not computed
Score
-19.026
kcal/mol
LE
-0.464
kcal/mol/HA
Fit Quality
-4.88
FQ (Leeson)
HAC
41
heavy atoms
MW
560
Da
LogP
3.95
cLogP
Overall: Promising but geometrically suspicious
Binding evidence: strong
Native-like contacts: mixed
Ligand efficiency: excellent
Geometry reliability: low
Reason: geometry warning, clashes, strain 45.6 kcal/mol
Interaction summary
Collapsible panels
H-bonds 6
Hydrophobic 22
π–π 2
Clashes 13
Severe clashes 4
| Final rank | 61.56503445513917 | Score | -19.0257 |
|---|---|---|---|
| Inter norm | -0.591115 | Intra norm | 0.127073 |
| Top1000 | no | Excluded | yes |
| Contacts | 14 | H-bonds | 6 |
| Artifact reason | excluded; geometry warning; 17 clashes; 4 protein clashes | ||
| Residues | A:ARG29;A:ARG66;A:ARG71;A:ASN65;A:GLN36;A:ILE61;A:LEU23;A:LEU68;A:LYS64;A:LYS69;A:PHE32;A:PHE35;A:PRO27;A:PRO67 | ||
Protein summary
200 residues
| Protein target | T02 | Atoms | 3128 |
|---|---|---|---|
| Residues | 200 | Chains | 2 |
| Residue summary | LYS:374; LEU:361; GLU:240; VAL:224; ARG:192; PHE:180; ILE:171; PRO:168; ASN:140; SER:132; TYR:126; GLN:119; ASP:108; MET:102; THR:98; GLY:91 | ||
Native ligand reference
★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
| Name | 5SD8 | Contacts | 21 |
|---|---|---|---|
| Pose | Open native pose | H-bonds | 5 |
| IFP residues | A:ALA10; A:ASN65; A:ASP22; A:GLN36; A:GLU31; A:GLY117; A:GLY21; A:ILE61; A:ILE8; A:LEU23; A:LEU68; A:NAP201; A:PHE32; A:PHE35; A:PRO62; A:SER60; A:THR137; A:THR57; A:TYR122; A:VAL116; A:VAL9 | ||
| Current overlap | 7 | Native recall | 0.33 |
| Jaccard | 0.25 | RMSD | - |
| H-bond strict | 1 | Strict recall | 0.20 |
| H-bond same residue+role | 1 | Role recall | 0.20 |
| H-bond same residue | 1 | Residue recall | 0.20 |
Hydrogen bonds
Mode: strict. Count shows atom-level H-bonds; unique residues in summary: 0.
π–π interactions
Native π–π recall is disabled because no explicit native π–π reference was stored.
Hydrophobic contacts
Clashes
All stored poses for this docking hit
| Pose | Final rank | Inter norm | Score | HB | Contacts | Native overlap | Native recall | HB role recall | RMSD | Excluded | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1216 | 6.740078592823252 | -0.325149 | -15.3861 | 5 | 16 | 0 | 0.00 | 0.00 | - | no | Open |
| 659 | 6.848418995845831 | -0.54587 | -23.877 | 4 | 20 | 0 | 0.00 | 0.00 | - | no | Open |
| 1981 | 7.845023095666477 | -0.596057 | -24.1773 | 6 | 21 | 17 | 0.81 | 0.20 | - | no | Open |
| 1214 | 8.353105962035386 | -0.352087 | -11.2766 | 3 | 11 | 0 | 0.00 | 0.00 | - | no | Open |
| 1980 | 8.62717503630049 | -0.542338 | -10.0763 | 5 | 20 | 16 | 0.76 | 0.20 | - | no | Open |
| 725 | 9.007211441369193 | -0.593522 | -18.8241 | 12 | 18 | 0 | 0.00 | 0.00 | - | no | Open |
| 1215 | 7.833416664295393 | -0.560892 | -25.23 | 3 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 657 | 8.075010895861169 | -0.738794 | -19.4295 | 4 | 18 | 0 | 0.00 | 0.00 | - | yes | Open |
| 656 | 8.728379444359497 | -0.654342 | -22.5585 | 7 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 655 | 11.433017028869171 | -0.718765 | -22.867 | 8 | 14 | 0 | 0.00 | 0.00 | - | yes | Open |
| 721 | 11.45130099675172 | -0.572249 | -14.229 | 11 | 19 | 0 | 0.00 | 0.00 | - | yes | Open |
| 654 | 11.834791345463259 | -0.701664 | -21.7294 | 9 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 724 | 12.698945712085667 | -0.503827 | -15.3486 | 12 | 20 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1982 | 12.854686527239082 | -0.516573 | -18.0504 | 2 | 20 | 17 | 0.81 | 0.00 | - | yes | Open |
| 720 | 14.67261542569625 | -0.606699 | -19.1125 | 14 | 19 | 0 | 0.00 | 0.00 | - | yes | Open |
| 723 | 15.52370107514838 | -0.592153 | -11.84 | 11 | 17 | 0 | 0.00 | 0.00 | - | yes | Open |
| 658 | 57.70738440415127 | -0.624437 | -23.3459 | 5 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1213 | 57.756968558170655 | -0.446925 | -17.3103 | 3 | 19 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1979 | 61.56503445513917 | -0.591115 | -19.0257 | 6 | 14 | 7 | 0.33 | 0.20 | - | yes | Current |
| 722 | 62.71962787254789 | -0.663494 | -18.6148 | 16 | 19 | 0 | 0.00 | 0.00 | - | yes | Open |
Molecular metrics
FreeSASA-based burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
Scoring & efficiency
Docking score
-19.026kcal/mol
Ligand efficiency (LE)
-0.4640kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-4.876
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
41HA
Physicochemical properties
Molecular weight
559.7Da
Lipinski: ≤ 500 Da
LogP (cLogP)
3.95
Lipinski: ≤ 5
Rotatable bonds
10
Conformational strain (MMFF94s)
Strain energy (ΔE)
45.59kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
118.23kcal/mol
Minimised FF energy
72.64kcal/mol
SASA & burial (FreeSASA)
not yet run
SASA has not been computed yet for this pose. Queue a background recompute to populate FreeSASA burial metrics without blocking the page.