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 (-0.633 kcal/mol/HA)
✓ Good fit quality (FQ -6.57)
✓ Good H-bonds (4 bonds)
✗ Very high strain energy (24.6 kcal/mol)
✗ Geometry warnings
ℹ SASA not computed
Score
-24.678
kcal/mol
LE
-0.633
kcal/mol/HA
Fit Quality
-6.57
FQ (Leeson)
HAC
39
heavy atoms
MW
563
Da
LogP
5.00
cLogP
Overall: Promising but geometrically suspicious
Binding evidence: strong
Native-like contacts: strong
Ligand efficiency: excellent
Geometry reliability: low
Reason: geometry warning, clashes, strain 24.6 kcal/mol
Interaction summary
Collapsible panels
H-bonds 4
Hydrophobic 24
π–π 1
Clashes 15
Severe clashes 1
| Final rank | 8.606101376310644 | Score | -24.6784 |
|---|---|---|---|
| Inter norm | -0.578067 | Intra norm | -0.0547119 |
| Top1000 | no | Excluded | yes |
| Contacts | 19 | H-bonds | 4 |
| Artifact reason | excluded; geometry warning; 12 clashes; 1 protein clash; high strain Δ 26.3 | ||
| Residues | A:ALA10;A:ASP22;A:GLU31;A:GLY21;A:ILE61;A:ILE8;A:LEU23;A:LEU28;A:NAP201;A:PHE32;A:PHE35;A:PRO27;A:PRO62;A:SER60;A:THR57;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 | 0.67 | 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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 2835 | 5.140940179939157 | -0.613935 | -21.7263 | 1 | 19 | 16 | 0.76 | 0.20 | - | no | Open |
| 1726 | 6.493870292602449 | -0.454498 | -13.5435 | 2 | 16 | 0 | 0.00 | 0.00 | - | no | Open |
| 1724 | 6.776811043433393 | -0.511168 | -12.6983 | 2 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1723 | 7.87770752525483 | -0.682535 | -26.5323 | 7 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2834 | 8.363228919661264 | -0.525185 | -20.5534 | 3 | 18 | 16 | 0.76 | 0.20 | - | yes | Open |
| 2836 | 8.606101376310644 | -0.578067 | -24.6784 | 4 | 19 | 16 | 0.76 | 0.00 | - | yes | Current |
| 1725 | 8.903461134297391 | -0.531647 | -22.3942 | 3 | 12 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2837 | 15.286382805119263 | -0.695886 | -19.891 | 3 | 18 | 14 | 0.67 | 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
-24.678kcal/mol
Ligand efficiency (LE)
-0.6328kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-6.567
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
39HA
Physicochemical properties
Molecular weight
563.1Da
Lipinski: ≤ 500 Da
LogP (cLogP)
5.00
Lipinski: ≤ 5
Rotatable bonds
8
Conformational strain (MMFF94s)
Strain energy (ΔE)
24.63kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
151.38kcal/mol
Minimised FF energy
126.75kcal/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.