Molecular metrics status: done
RDKit SASA-based burial metrics are cached.
SASA cached
3D complex viewer
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Protein receptor
Pocket residues
Cofactor context
Docked ligand
Overall assessment
Weak
SASA cached
Weak or marginal quality
Binding strong
Geometry medium
Native strong
SASA done
Strain ΔE
27.9 kcal/mol
Protein clashes
3
Internal clashes
3
Native overlap
contact recall 0.94, Jaccard 0.75, H-bond role recall 0.50
Reason: no major geometry red flags detected
3 protein-contact clashes
3 intramolecular clashes
Molecular report
Weak
Marginal quality. Consider only alongside better-scoring alternatives.
✓ Excellent LE (-0.695 kcal/mol/HA)
✓ Good fit quality (FQ -6.49)
✓ Strong H-bond network (9 bonds)
✓ Deep burial (82% SASA buried)
✓ Lipophilic contacts well-matched (73%)
✗ High strain energy (27.9 kcal/mol)
✗ Geometry warnings
✗ Internal clashes (9)
Score
-18.767
kcal/mol
LE
-0.695
kcal/mol/HA
Fit Quality
-6.49
FQ (Leeson)
HAC
27
heavy atoms
MW
368
Da
LogP
3.85
cLogP
Final rank
3.7083
rank score
Inter norm
-1.026
normalised
Contacts
19
H-bonds 10
Interaction summary
HBD 1
HBA 8
HY 4
PI 3
CLASH 3
Interaction summary
HBD 1
HBA 8
HY 4
PI 3
CLASH 3
HBD/HBA · H-bonds (geometric)
HBD = ligand donates H · HBA = ligand accepts H · ~ = weak (≥110°). Mode: strict. Residues: 6.
PI · π–π interactions
Native π–π recall is disabled because no explicit native π–π reference was stored.
HY · Hydrophobic contacts
CLASH · Clashes
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 | 0.75 | RMSD | - |
| HB strict | 7 | Strict recall | 0.58 |
| HB same residue+role | 5 | HB role recall | 0.50 |
| HB same residue | 5 | HB residue recall | 0.50 |
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
Molecular metrics
RDKit SASA burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
Scoring & efficiency
Docking score
-18.767kcal/mol
Ligand efficiency (LE)
-0.6951kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-6.485
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
27HA
Physicochemical properties
Molecular weight
368.4Da
Lipinski: ≤ 500 Da
LogP (cLogP)
3.85
Lipinski: ≤ 5
Rotatable bonds
10
Conformational strain (MMFF94s)
Strain energy (ΔE)
27.87kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
94.09kcal/mol
Minimised FF energy
66.22kcal/mol
SASA & burial
✓ computed
SASA (unbound)
602.4Ų
Total solvent-accessible surface area of free ligand
BSA total
492.0Ų
Buried surface area upon binding
BSA apolar
359.5Ų
Hydrophobic contacts buried
BSA polar
132.5Ų
Polar contacts buried
Fraction buried
81.7%
> 60 % indicates good pocket engagement
Lipophilic contact ratio
73.1%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA
-2138.1Ų
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
778.9Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)