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
Likely artefact or unreliable pose
Binding strong
Geometry medium
Native strong
SASA done
Strain ΔE
35.0 kcal/mol
Protein clashes
5
Internal clashes
5
Native overlap
contact recall 0.82, Jaccard 0.82, H-bond role recall 0.55
Reason: no major geometry red flags detected
5 protein-contact clashes
5 intramolecular clashes
55% of hydrophobic surface appears solvent-exposed (11/20 atoms). Partial exposure is common but may limit selectivity and membrane permeability.
Molecular report
Reject
Multiple quality flags — this pose should be deprioritised or discarded.
✓ Excellent LE (-0.609 kcal/mol/HA)
✓ Good fit quality (FQ -5.87)
✓ Good H-bonds (4 bonds)
✓ Deep burial (65% SASA buried)
✗ Very high strain energy (35.0 kcal/mol)
✗ Geometry warnings
✗ Protein-contact clashes (9)
✗ Many internal clashes (10)
Score
-18.262
kcal/mol
LE
-0.609
kcal/mol/HA
Fit Quality
-5.87
FQ (Leeson)
HAC
30
heavy atoms
MW
458
Da
LogP
2.66
cLogP
Final rank
1.8644
rank score
Inter norm
-0.798
normalised
Contacts
14
H-bonds 8
Interaction summary
HBA 4
HY 3
PI 2
CLASH 5
Interaction summary
HBA 4
HY 3
PI 2
CLASH 5
HBD/HBA · H-bonds (geometric)
HBD = ligand donates H · HBA = ligand accepts H · ~ = weak (≥110°). Mode: strict. 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: strict.
| 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 | 14 | Native recall | 0.82 |
| Jaccard | 0.82 | RMSD | - |
| HB strict | 6 | Strict recall | 0.46 |
| HB same residue+role | 6 | HB role recall | 0.55 |
| HB same residue | 6 | HB residue recall | 0.55 |
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 258 | 0.25042243857344604 | -1.14891 | -31.0205 | 5 | 13 | 0 | 0.00 | 0.00 | - | no | Open |
| 264 | 1.0927050169268024 | -1.00795 | -24.7925 | 4 | 14 | 0 | 0.00 | 0.00 | - | no | Open |
| 235 | 1.1073660704846975 | -0.900181 | -23.0605 | 5 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 257 | 1.107384658545134 | -0.819468 | -19.7407 | 2 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 313 | 1.3452488083914984 | -0.690473 | -17.5537 | 4 | 16 | 0 | 0.00 | 0.00 | - | no | Open |
| 252 | 1.4292786430260862 | -0.917081 | -25.3234 | 6 | 21 | 0 | 0.00 | 0.00 | - | no | Open |
| 330 | 1.622607140224942 | -0.920565 | -25.7973 | 2 | 18 | 0 | 0.00 | 0.00 | - | no | Open |
| 281 | 1.8373311043657956 | -0.808595 | -21.8267 | 3 | 15 | 0 | 0.00 | 0.00 | - | no | Open |
| 206 | 1.8644199550012546 | -0.798056 | -18.2624 | 8 | 14 | 14 | 0.82 | 0.55 | - | no | Current |
| 361 | 2.311042942916434 | -0.848092 | -25.1719 | 4 | 12 | 0 | 0.00 | 0.00 | - | no | Open |
| 261 | 2.5727308749693383 | -0.803338 | -20.2039 | 2 | 12 | 0 | 0.00 | 0.00 | - | no | Open |
| 224 | 2.7169060620044525 | -1.02158 | -27.5832 | 9 | 18 | 5 | 0.29 | 0.18 | - | no | Open |
| 234 | 3.995775267533372 | -1.22318 | -34.5475 | 13 | 21 | 0 | 0.00 | 0.00 | - | no | Open |
Molecular metrics
RDKit SASA burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
Scoring & efficiency
Docking score
-18.262kcal/mol
Ligand efficiency (LE)
-0.6087kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-5.872
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
30HA
Physicochemical properties
Molecular weight
457.6Da
Lipinski: ≤ 500 Da
LogP (cLogP)
2.66
Lipinski: ≤ 5
Rotatable bonds
6
Conformational strain (MMFF94s)
Strain energy (ΔE)
35.00kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
83.64kcal/mol
Minimised FF energy
48.64kcal/mol
SASA & burial
✓ computed
SASA (unbound)
669.3Ų
Total solvent-accessible surface area of free ligand
BSA total
435.4Ų
Buried surface area upon binding
BSA apolar
223.6Ų
Hydrophobic contacts buried
BSA polar
211.8Ų
Polar contacts buried
Fraction buried
65.1%
> 60 % indicates good pocket engagement
Lipophilic contact ratio
51.4%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA
-2206.3Ų
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
653.0Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)