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
50.7 kcal/mol
Protein clashes
5
Internal clashes
5
Native overlap
contact recall 0.88, Jaccard 0.68, H-bond role recall 0.45
Reason: strain 50.7 kcal/mol
strain ΔE 50.7 kcal/mol
5 protein-contact clashes
5 intramolecular clashes
68% of hydrophobic surface is solvent-exposed (15/22 atoms). Large non-polar area without protein contacts incurs a desolvation penalty and will reduce binding affinity. Consider truncating or replacing the exposed fragment.
EcoTox / ADMET
In-silico prediction only
Fish LC₅₀
Cat. 3 — Harmful (10–100 mg/L)
Daphnia EC₅₀
Cat. 3 — Harmful (10–100 mg/L)
Algae IC₅₀
Cat. 3 — Harmful (10–100 mg/L)
Bioaccum.
Not B (BCF≤2000)
Persistent
No
ADMET alerts (in-silico)
hERG Medium
Ames Clear
DILI Low
Molecular report
Reject
Multiple quality flags — this pose should be deprioritised or discarded.
✓ Excellent LE (-0.452 kcal/mol/HA)
✓ Good fit quality (FQ -4.48)
✓ Strong H-bond network (6 bonds)
✓ Deep burial (79% SASA buried)
✓ Lipophilic contacts well-matched (81%)
✗ Extreme strain energy (50.7 kcal/mol)
✗ Geometry warnings
✗ Many internal clashes (16)
Score
-14.899
kcal/mol
LE
-0.452
kcal/mol/HA
Fit Quality
-4.48
FQ (Leeson)
HAC
33
heavy atoms
MW
447
Da
LogP
2.78
cLogP
Final rank
6.0933
rank score
Inter norm
-0.830
normalised
Contacts
20
H-bonds 12
Interaction summary
HBD 1
HBA 5
HY 2
PI 2
CLASH 5
Interaction summary
HBD 1
HBA 5
HY 2
PI 2
CLASH 5
HBD/HBA · H-bonds (geometric)
HBD = ligand donates H · HBA = ligand accepts H · ~ = weak (≥110°). Mode: permissive. Residues: 4.
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: permissive.
| Name | 6FXW | Contacts | 17 |
|---|---|---|---|
| Pose | Open native pose | HB | 0 |
| IFP residues |
ALA15
ARG116
ARG140
ARG144
ASN106
ASP13
CYS72
GLY73
GLY75
GLY77
HIS105
HIS14
HIS141
ILE76
LEU101
THR74
TYR49
| ||
| Current overlap | 15 | Native recall | 0.88 |
| Jaccard | 0.68 | RMSD | - |
| HB strict | 6 | Strict recall | 0.46 |
| HB same residue+role | 5 | HB role recall | 0.45 |
| HB same residue | 5 | HB residue recall | 0.45 |
Protein summary
155 residues
| Protein target | T10 | Atoms | 4590 |
|---|---|---|---|
| Residues | 155 | Chains | 1 |
| Residue summary | ILE:494; ARG:384; ALA:360; VAL:352; LEU:304; GLU:300; THR:280; MET:272; LYS:220; ASP:216; TYR:210; HIS:204; GLY:182; SER:176; GLN:170; ASN:140 | ||
All stored poses for this docking hit
| Pose | Final rank | Inter norm | Score | HB | CT | CT overlap | CT recall | HB role rec. | RMSD | Excluded | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 358 | 1.0155874823896842 | -1.03757 | -29.1722 | 9 | 19 | 0 | 0.00 | 0.00 | - | no | Open |
| 429 | 1.2454421783000702 | -0.93846 | -24.4127 | 5 | 19 | 0 | 0.00 | 0.00 | - | no | Open |
| 313 | 2.885852622249077 | -1.01039 | -27.4889 | 13 | 18 | 0 | 0.00 | 0.00 | - | no | Open |
| 398 | 2.924227394629478 | -0.835383 | -20.9815 | 7 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 352 | 3.0026657423916276 | -0.732155 | -19.3364 | 5 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 380 | 3.3276613975301435 | -0.663488 | -20.2658 | 8 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 445 | 3.555221163076815 | -0.895338 | -24.4953 | 7 | 23 | 0 | 0.00 | 0.00 | - | no | Open |
| 474 | 3.58031970662104 | -0.827347 | -20.0987 | 7 | 20 | 0 | 0.00 | 0.00 | - | no | Open |
| 359 | 3.979795137275888 | -0.749907 | -21.5576 | 7 | 19 | 0 | 0.00 | 0.00 | - | no | Open |
| 449 | 4.019285786281364 | -0.837107 | -23.0178 | 9 | 20 | 0 | 0.00 | 0.00 | - | no | Open |
| 339 | 4.480605875198744 | -0.932411 | -28.9537 | 15 | 24 | 0 | 0.00 | 0.00 | - | no | Open |
| 412 | 4.730901331874943 | -0.778603 | -23.0559 | 9 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 374 | 5.169873192086845 | -0.788752 | -19.2509 | 8 | 18 | 0 | 0.00 | 0.00 | - | no | Open |
| 369 | 5.306786399993182 | -0.810316 | -22.4469 | 16 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 315 | 6.093306122153872 | -0.830242 | -14.8988 | 12 | 20 | 15 | 0.88 | 0.45 | - | no | Current |
Molecular metrics
RDKit SASA burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
Scoring & efficiency
Docking score
-14.899kcal/mol
Ligand efficiency (LE)
-0.4515kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-4.479
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
33HA
Physicochemical properties
Molecular weight
447.5Da
Lipinski: ≤ 500 Da
LogP (cLogP)
2.78
Lipinski: ≤ 5
Rotatable bonds
11
Conformational strain (MMFF94s)
Strain energy (ΔE)
50.72kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
127.22kcal/mol
Minimised FF energy
76.51kcal/mol
SASA & burial
✓ computed
SASA (unbound)
745.3Ų
Total solvent-accessible surface area of free ligand
BSA total
588.6Ų
Buried surface area upon binding
BSA apolar
477.1Ų
Hydrophobic contacts buried
BSA polar
111.5Ų
Polar contacts buried
Fraction buried
79.0%
> 60 % indicates good pocket engagement
Lipophilic contact ratio
81.0%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA
-2332.2Ų
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
2417.4Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA
671.8Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)