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
Weak
Marginal quality. Consider only alongside better-scoring alternatives.
✓ Excellent LE (-0.679 kcal/mol/HA)
✓ Good fit quality (FQ -6.90)
✓ Good H-bonds (3 bonds)
✗ High strain energy (13.8 kcal/mol)
✗ Geometry warnings
ℹ SASA not computed
Score
-24.447
kcal/mol
LE
-0.679
kcal/mol/HA
Fit Quality
-6.90
FQ (Leeson)
HAC
36
heavy atoms
MW
475
Da
LogP
5.26
cLogP
Overall: Promising but geometrically suspicious
Binding evidence: strong
Native-like contacts: strong
Ligand efficiency: excellent
Geometry reliability: low
Reason: geometry warning, clashes, strain 13.8 kcal/mol
Interaction summary
Collapsible panels
H-bonds 3
Hydrophobic 24
π–π 3
Clashes 11
Severe clashes 2
| Final rank | 8.125895496850134 | Score | -24.4465 |
|---|---|---|---|
| Inter norm | -0.650455 | Intra norm | -0.0286145 |
| Top1000 | no | Excluded | yes |
| Contacts | 18 | H-bonds | 3 |
| Artifact reason | excluded; geometry warning; 12 clashes; 2 protein clashes; moderate strain Δ 17.1 | ||
| Residues | A:ALA10;A:ARG29;A:ASN65;A:GLN36;A:GLU31;A:ILE61;A:ILE8;A:LEU23;A:LEU28;A:LEU68;A:LYS69;A:NAP201;A:PHE32;A:PHE35;A:PRO27;A:THR57;A:TRP25;A:VAL116 | ||
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 | 13 | Native recall | 0.62 |
| Jaccard | 0.50 | 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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 2881 | 3.2181441127600032 | -0.592305 | -18.2461 | 0 | 19 | 16 | 0.76 | 0.00 | - | no | Open |
| 2121 | 4.894710106075079 | -0.495662 | -15.9608 | 4 | 13 | 0 | 0.00 | 0.00 | - | no | Open |
| 2882 | 6.5529718899293625 | -0.646817 | -21.4898 | 3 | 21 | 17 | 0.81 | 0.00 | - | yes | Open |
| 2122 | 6.836035882864541 | -0.566788 | -18.4364 | 2 | 21 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2884 | 8.125895496850134 | -0.650455 | -24.4465 | 3 | 18 | 13 | 0.62 | 0.00 | - | yes | Current |
| 2124 | 9.236712434834281 | -0.576397 | -17.538 | 8 | 13 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2123 | 59.33299707834306 | -0.706954 | -20.7008 | 4 | 21 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2883 | 60.327325119100976 | -0.654226 | -21.3654 | 4 | 21 | 17 | 0.81 | 0.40 | - | yes | Open |
Molecular metrics
FreeSASA-based burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
Scoring & efficiency
Docking score
-24.447kcal/mol
Ligand efficiency (LE)
-0.6791kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-6.902
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
36HA
Physicochemical properties
Molecular weight
474.6Da
Lipinski: ≤ 500 Da
LogP (cLogP)
5.26
Lipinski: ≤ 5
Rotatable bonds
8
Conformational strain (MMFF94s)
Strain energy (ΔE)
13.79kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
17.36kcal/mol
Minimised FF energy
3.56kcal/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.