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 (-0.632 kcal/mol/HA)
✓ Good fit quality (FQ -6.33)
✗ Very high strain energy (22.5 kcal/mol)
✗ Geometry warnings
✗ Protein contact clashes
ℹ SASA not computed
Score
-21.492
kcal/mol
LE
-0.632
kcal/mol/HA
Fit Quality
-6.33
FQ (Leeson)
HAC
34
heavy atoms
MW
476
Da
LogP
3.33
cLogP
Overall: Promising but geometrically suspicious
Binding evidence: strong
Native-like contacts: strong
Ligand efficiency: excellent
Geometry reliability: low
Reason: geometry warning, clashes, protein contact clashes, strain 22.5 kcal/mol
Interaction summary
Collapsible panels
H-bonds 2
Hydrophobic 19
π–π 3
Clashes 7
Severe clashes 0
| Final rank | 7.533781901841193 | Score | -21.4916 |
|---|---|---|---|
| Inter norm | -0.634882 | Intra norm | 0.00277534 |
| Top1000 | no | Excluded | no |
| Contacts | 12 | H-bonds | 2 |
| Artifact reason | geometry warning; 22 clashes; 7 protein contact clashes; high strain Δ 36.8 | ||
| Residues | A:ARG17;A:HIS241;A:LEU188;A:LEU226;A:LEU229;A:MET233;A:NDP302;A:PHE113;A:PRO115;A:TYR191;A:TYR194;D:ARG287 | ||
Protein summary
308 residues
| Protein target | T04 | Atoms | 4210 |
|---|---|---|---|
| Residues | 308 | Chains | 3 |
| Residue summary | LEU:494; ALA:421; ARG:384; VAL:368; THR:295; TYR:231; SER:198; PRO:196; ILE:190; LYS:176; ASN:154; GLU:150; GLY:126; PHE:120; HIS:119; ASP:108 | ||
Native ligand reference
★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
| Name | 7PXX | Contacts | 19 |
|---|---|---|---|
| Pose | Open native pose | H-bonds | 8 |
| IFP residues | A:ARG17; A:ASP181; A:GLY225; A:HIS241; A:LEU188; A:LEU226; A:LEU229; A:LYS198; A:MET233; A:NDP302; A:PHE113; A:PRO115; A:SER111; A:SER112; A:SER227; A:TYR191; A:TYR194; A:VAL230; D:ARG287 | ||
| Current overlap | 12 | Native recall | 0.63 |
| Jaccard | 0.63 | RMSD | - |
| H-bond strict | 2 | Strict recall | 0.33 |
| H-bond same residue+role | 2 | Role recall | 0.40 |
| H-bond same residue | 2 | Residue recall | 0.40 |
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1514 | 7.533781901841193 | -0.634882 | -21.4916 | 2 | 12 | 12 | 0.63 | 0.40 | - | no | Current |
| 1519 | 7.946048041711834 | -0.337285 | -12.4181 | 0 | 12 | 10 | 0.53 | 0.00 | - | no | Open |
| 1516 | 8.037752732679447 | -0.832101 | -28.9631 | 1 | 13 | 13 | 0.68 | 0.20 | - | no | Open |
| 2852 | 8.48620637071585 | -0.831972 | -28.6804 | 2 | 18 | 0 | 0.00 | 0.00 | - | no | Open |
| 1583 | 9.232988641186012 | -0.94457 | -33.9929 | 6 | 19 | 0 | 0.00 | 0.00 | - | no | Open |
| 2859 | 8.441706828631817 | -0.587213 | -21.1824 | 0 | 14 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1518 | 8.546547835918052 | -0.85907 | -28.691 | 2 | 12 | 11 | 0.58 | 0.20 | - | yes | Open |
| 1520 | 8.565928211114365 | -0.5023 | -13.6734 | 2 | 12 | 10 | 0.53 | 0.00 | - | yes | Open |
| 2858 | 8.61612676343768 | -0.675324 | -23.4232 | 2 | 13 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1515 | 8.800782866793854 | -0.706498 | -24.139 | 3 | 10 | 10 | 0.53 | 0.20 | - | yes | Open |
| 1584 | 9.137800022550554 | -0.902122 | -29.855 | 4 | 20 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2856 | 9.22048295162044 | -0.754895 | -24.7354 | 0 | 17 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1586 | 9.221161529299227 | -0.703799 | -25.1048 | 9 | 5 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2853 | 10.330473319524868 | -0.645165 | -22.0761 | 3 | 19 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2854 | 13.695905445005074 | -0.777668 | -28.4251 | 3 | 13 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1585 | 58.98715940547089 | -0.876248 | -31.2541 | 6 | 22 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1517 | 58.99014428676841 | -0.436484 | -11.9302 | 1 | 15 | 15 | 0.79 | 0.00 | - | yes | Open |
| 2857 | 59.549788082864985 | -0.834785 | -25.7247 | 4 | 14 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2855 | 62.18538355187409 | -0.659105 | -21.5791 | 3 | 13 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1521 | 62.87410528533428 | -0.498737 | -17.4697 | 3 | 12 | 11 | 0.58 | 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
-21.492kcal/mol
Ligand efficiency (LE)
-0.6321kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-6.325
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
34HA
Physicochemical properties
Molecular weight
475.9Da
Lipinski: ≤ 500 Da
LogP (cLogP)
3.33
Lipinski: ≤ 5
Rotatable bonds
4
Conformational strain (MMFF94s)
Strain energy (ΔE)
22.51kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
120.17kcal/mol
Minimised FF energy
97.67kcal/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.