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.
✓ Good LE (-0.327 kcal/mol/HA)
✓ Good fit quality (FQ -3.32)
✗ Very high strain energy (39.9 kcal/mol)
✗ Geometry warnings
✗ Protein contact clashes
ℹ SASA not computed
Score
-11.763
kcal/mol
LE
-0.327
kcal/mol/HA
Fit Quality
-3.32
FQ (Leeson)
HAC
36
heavy atoms
MW
488
Da
LogP
4.57
cLogP
Overall: Promising but geometrically suspicious
Binding evidence: strong
Native-like contacts: strong
Ligand efficiency: good
Geometry reliability: low
Reason: geometry warning, clashes, protein contact clashes, strain 39.9 kcal/mol
Interaction summary
Collapsible panels
H-bonds 1
Hydrophobic 24
π–π 2
Clashes 9
Severe clashes 0
| Final rank | 7.040548748826728 | Score | -11.763 |
|---|---|---|---|
| Inter norm | -0.705117 | Intra norm | 0.378365 |
| Top1000 | no | Excluded | no |
| Contacts | 20 | H-bonds | 1 |
| Artifact reason | geometry warning; 16 clashes; 9 protein contact clashes; high strain Δ 39.0 | ||
| Residues | A:ALA10;A:ARG29;A:ASN65;A:GLN36;A:GLU31;A:ILE61;A:ILE8;A:LEU23;A:LEU28;A:LEU68;A:NAP201;A:PHE32;A:PHE35;A:PRO27;A:PRO62;A:SER60;A:TRP25;A:TYR122;A:VAL116;A:VAL9 | ||
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 | 16 | Native recall | 0.76 |
| Jaccard | 0.64 | RMSD | - |
| H-bond strict | 0 | Strict recall | 0.00 |
| H-bond same residue+role | 0 | Role recall | 0.00 |
| H-bond same residue | 0 | Residue recall | 0.00 |
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1228 | 5.365110851287785 | -0.62277 | -24.0781 | 1 | 17 | 17 | 0.81 | 0.00 | - | no | Open |
| 1226 | 5.49305968290716 | -0.502626 | -17.8874 | 0 | 15 | 10 | 0.48 | 0.00 | - | no | Open |
| 1232 | 7.040548748826728 | -0.705117 | -11.763 | 1 | 20 | 16 | 0.76 | 0.00 | - | no | Current |
| 1225 | 54.43504951083616 | -0.478839 | -17.6798 | 2 | 12 | 8 | 0.38 | 0.20 | - | no | Open |
| 1229 | 55.860770950645986 | -0.44883 | -13.5194 | 0 | 16 | 13 | 0.62 | 0.00 | - | no | Open |
| 1231 | 56.119459366654105 | -0.635488 | -22.7365 | 0 | 22 | 18 | 0.86 | 0.00 | - | no | Open |
| 1227 | 56.630859507422926 | -0.765375 | -14.0568 | 1 | 21 | 16 | 0.76 | 0.00 | - | no | Open |
| 1230 | 59.73094263161538 | -0.551147 | -7.92719 | 0 | 19 | 17 | 0.81 | 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
-11.763kcal/mol
Ligand efficiency (LE)
-0.3267kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-3.321
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
36HA
Physicochemical properties
Molecular weight
487.7Da
Lipinski: ≤ 500 Da
LogP (cLogP)
4.57
Lipinski: ≤ 5
Rotatable bonds
6
Conformational strain (MMFF94s)
Strain energy (ΔE)
39.85kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
123.69kcal/mol
Minimised FF energy
83.84kcal/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.