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
67.3 kcal/mol
Protein clashes
11
Internal clashes
11
Native overlap
contact recall 0.94, Jaccard 0.83, H-bond role recall 0.60
Reason: 11 protein-contact clashes, 11 internal clashes, strain 67.3 kcal/mol
strain ΔE 67.3 kcal/mol
11 protein-contact clashes
11 intramolecular clashes
Molecular report
Reject
Multiple quality flags — this pose should be deprioritised or discarded.
✓ Excellent LE (-0.880 kcal/mol/HA)
✓ Good fit quality (FQ -8.00)
✓ Strong H-bond network (16 bonds)
✓ Deep burial (93% SASA buried)
✓ Lipophilic contacts well-matched (63%)
✗ Extreme strain energy (67.3 kcal/mol)
✗ Geometry warnings
Score
-21.993
kcal/mol
LE
-0.880
kcal/mol/HA
Fit Quality
-8.00
FQ (Leeson)
HAC
25
heavy atoms
MW
378
Da
LogP
-1.58
cLogP
Interaction summary
HB 16
HY 10
PI 2
CLASH 11
Interaction summary
HB 16
HY 10
PI 2
CLASH 11
HB · H-bonds
Mode: strict. Count shows atom-level H-bonds; unique residues in summary: 0.
PI · π–π interactions
Native π–π recall is disabled because no explicit native π–π reference was stored.
HY · Hydrophobic contacts
CLASH · Clashes
| Final rank | 7.624 | Score | -21.993 |
|---|---|---|---|
| Inter norm | -1.232 | Intra norm | 0.353 |
| Top1000 | no | Excluded | no |
| Contacts | 17 | H-bonds | 16 |
| Artifact reason | geometry warning; 3 clashes; 5 protein clashes; high strain Δ 67.3 | ||
| Residues |
ARG140
ARG144
ASN106
HIS105
HIS141
LEU145
MET101
ARG46
ASP13
CYS72
GLY73
GLY77
HIS14
ILE15
ILE76
SER74
TYR49
| ||
Native ligand reference
★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
| Name | 6FXS | Contacts | 16 |
|---|---|---|---|
| Pose | Open native pose | HB | 0 |
| IFP residues |
ARG140
ARG144
ASN106
HIS105
HIS141
ARG46
ASP13
CYS72
GLY73
GLY75
GLY77
HIS14
ILE15
ILE76
SER74
TYR49
| ||
| Current overlap | 15 | Native recall | 0.94 |
| Jaccard | 0.83 | RMSD | - |
| HB strict | 6 | Strict recall | 0.50 |
| HB same residue+role | 6 | HB role recall | 0.60 |
| HB same residue | 6 | HB residue recall | 0.60 |
Protein summary
302 residues
| Protein target | T12 | Atoms | 4598 |
|---|---|---|---|
| Residues | 302 | Chains | 2 |
| Residue summary | ARG:576; ILE:456; VAL:448; GLU:360; ALA:340; LEU:304; TYR:252; HIS:204; PRO:196; THR:196; GLY:182; LYS:176; ASP:168; PHE:160; MET:153; SER:121 | ||
Receptor context
1 kept / 0 excluded
Receptor context filtering: interactions and SASA are computed against protein atoms plus allowed cofactors/ions. Native ligand-like HETATM partners are excluded from scoring.
Kept context 1
Excluded HETATM 0
Kept cofactors / ions
A:CSD72
All stored poses for this docking hit
| Pose | Final rank | Inter norm | Score | HB | CT | CT overlap | CT recall | HB role rec. | RMSD | Excluded | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 69 | 4.47170641172371 | -0.945394 | -15.7587 | 11 | 16 | 0 | 0.00 | 0.00 | - | no | Open |
| 49 | 7.624151691292718 | -1.23229 | -21.9929 | 16 | 17 | 15 | 0.94 | 0.60 | - | no | Current |
Molecular metrics
RDKit SASA burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
Scoring & efficiency
Docking score
-21.993kcal/mol
Ligand efficiency (LE)
-0.8797kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-7.997
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
25HA
Physicochemical properties
Molecular weight
378.3Da
Lipinski: ≤ 500 Da
LogP (cLogP)
-1.58
Lipinski: ≤ 5
Rotatable bonds
12
Conformational strain (MMFF94s)
Strain energy (ΔE)
67.28kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
151.88kcal/mol
Minimised FF energy
84.60kcal/mol
SASA & burial
✓ computed
SASA (unbound)
592.4Ų
Total solvent-accessible surface area of free ligand
BSA total
552.3Ų
Buried surface area upon binding
BSA apolar
348.9Ų
Hydrophobic contacts buried
BSA polar
203.4Ų
Polar contacts buried
Fraction buried
93.2%
> 60 % indicates good pocket engagement
Lipophilic contact ratio
63.2%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA
-2056.1Ų
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
2454.8Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA
759.0Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)