Molecular metrics status: done
RDKit SASA-based burial metrics are cached.
SASA cached
3D complex viewer
Viewer legend
Protein receptor
Pocket residues
Cofactor context
Docked ligand
Overall assessment
Reject
SASA cached
Promising but geometrically suspicious
Binding strong
Geometry low
Native strong
SASA done
Strain ΔE
82.5 kcal/mol
Protein clashes
7
Internal clashes
7
Native overlap
contact recall 0.69, Jaccard 0.45
Reason: 7 internal clashes, strain 82.5 kcal/mol
strain ΔE 82.5 kcal/mol
7 protein-contact clashes
7 intramolecular clashes
Molecular report
Reject
Multiple quality flags — this pose should be deprioritised or discarded.
✓ Excellent LE (-0.684 kcal/mol/HA)
✓ Good fit quality (FQ -7.10)
✓ Strong H-bond network (7 bonds)
✓ Deep burial (77% SASA buried)
✓ Lipophilic contacts well-matched (73%)
✗ Extreme strain energy (82.5 kcal/mol)
✗ Geometry warnings
✗ Many internal clashes (21)
Score
-26.674
kcal/mol
LE
-0.684
kcal/mol/HA
Fit Quality
-7.10
FQ (Leeson)
HAC
39
heavy atoms
MW
545
Da
LogP
-0.72
cLogP
Interaction summary
HB 7
HY 18
PI 0
CLASH 7
Interaction summary
HB 7
HY 18
PI 0
CLASH 7
HB · H-bonds
Mode: strict. Count shows atom-level H-bonds; unique residues in summary: 0.
PI · π–π interactions
No pi · π–π interactions detected for this pose.
HY · Hydrophobic contacts
CLASH · Clashes
| Final rank | 7.449 | Score | -26.674 |
|---|---|---|---|
| Inter norm | -0.725 | Intra norm | 0.041 |
| Top1000 | no | Excluded | no |
| Contacts | 16 | H-bonds | 7 |
| Artifact reason | geometry warning; 21 clashes; 4 protein clashes; high strain Δ 82.5 | ||
| Residues |
ALA244
ALA90
ARG74
ASN245
ASP71
GLY246
GLY85
LEU73
LYS211
LYS89
MET70
PHE83
PRO212
PRO213
TYR408
VAL88
| ||
Native ligand reference
★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
| Name | 9IFF | Contacts | 13 |
|---|---|---|---|
| Pose | Open native pose | HB | 0 |
| IFP residues |
ALA209
ARG74
ASN208
GLY214
GLY215
GLY85
LEU73
LYS211
MET70
PHE83
PRO212
PRO213
VAL88
| ||
| Current overlap | 9 | Native recall | 0.69 |
| Jaccard | 0.45 | RMSD | - |
| HB strict | 0 | Strict recall | - |
| HB same residue+role | 0 | HB role recall | - |
| HB same residue | 0 | HB residue recall | - |
Protein summary
489 residues
| Protein target | T15 | Atoms | 7420 |
|---|---|---|---|
| Residues | 489 | Chains | 1 |
| Residue summary | VAL:768; LYS:704; LEU:703; ILE:532; GLU:450; THR:434; ARG:408; PHE:400; ALA:390; ASN:350; PRO:350; GLY:336; SER:319; TYR:294; ASP:264; MET:204 | ||
All stored poses for this docking hit
| Pose | Final rank | Inter norm | Score | HB | CT | CT overlap | CT recall | HB role rec. | RMSD | Excluded | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 25 | 4.545849938916814 | -0.612181 | -23.1555 | 6 | 15 | 0 | 0.00 | - | - | no | Open |
| 50 | 4.558542500238084 | -0.750709 | -26.6034 | 12 | 17 | 0 | 0.00 | - | - | no | Open |
| 37 | 5.41903790277031 | -0.585366 | -22.3397 | 7 | 9 | 0 | 0.00 | - | - | no | Open |
| 46 | 5.925882696488416 | -0.670681 | -24.862 | 9 | 11 | 0 | 0.00 | - | - | no | Open |
| 29 | 7.449320461081546 | -0.724751 | -26.6738 | 7 | 16 | 9 | 0.69 | - | - | no | Current |
Molecular metrics
RDKit SASA burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
Scoring & efficiency
Docking score
-26.674kcal/mol
Ligand efficiency (LE)
-0.6839kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-7.098
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
39HA
Physicochemical properties
Molecular weight
544.5Da
Lipinski: ≤ 500 Da
LogP (cLogP)
-0.72
Lipinski: ≤ 5
Rotatable bonds
11
Conformational strain (MMFF94s)
Strain energy (ΔE)
82.49kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
167.40kcal/mol
Minimised FF energy
84.92kcal/mol
SASA & burial
✓ computed
SASA (unbound)
773.7Ų
Total solvent-accessible surface area of free ligand
BSA total
597.4Ų
Buried surface area upon binding
BSA apolar
434.2Ų
Hydrophobic contacts buried
BSA polar
163.2Ų
Polar contacts buried
Fraction buried
77.2%
> 60 % indicates good pocket engagement
Lipophilic contact ratio
72.7%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA
-3052.5Ų
SASA_nonpolar(complex) − SASA_nonpolar(receptor) − SASA_nonpolar(ligand free). Negative = non-polar surface buried upon binding. Requires full polarity-decomposed SASA computation.
Receptor non-polar SASA
4005.2Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA
1531.1Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)