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
51.5 kcal/mol
Protein clashes
2
Internal clashes
2
Native overlap
contact recall 0.94, Jaccard 0.84, H-bond role recall 0.36
Reason: strain 51.5 kcal/mol
strain ΔE 51.5 kcal/mol
2 protein-contact clashes
Molecular report
Reject
Multiple quality flags — this pose should be deprioritised or discarded.
✓ Excellent LE (-1.523 kcal/mol/HA)
✓ Good fit quality (FQ -12.99)
✓ Strong H-bond network (11 bonds)
✓ Deep burial (85% SASA buried)
✓ Lipophilic contacts well-matched (70%)
✗ Extreme strain energy (51.5 kcal/mol)
✗ Geometry warnings
✗ Protein-contact clashes (10)
✗ Internal clashes (9)
Score
-31.974
kcal/mol
LE
-1.523
kcal/mol/HA
Fit Quality
-12.99
FQ (Leeson)
HAC
21
heavy atoms
MW
302
Da
LogP
-1.34
cLogP
Interaction summary
HB 11
HY 10
PI 0
CLASH 2
Interaction summary
HB 11
HY 10
PI 0
CLASH 2
| Final rank | 1.493 | Score | -31.974 |
|---|---|---|---|
| Inter norm | -1.246 | Intra norm | -0.277 |
| Top1000 | no | Excluded | no |
| Contacts | 18 | H-bonds | 11 |
| Artifact reason | geometry warning; 9 clashes; 10 protein contact clashes; high strain Δ 51.5 | ||
| Residues |
ALA15
ARG116
ARG144
ASN106
ASP13
CYS72
GLY73
GLY75
GLY77
HIS105
HIS14
HIS141
ILE76
LEU101
THR117
THR74
TYR49
VAL97
| ||
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 | ||
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 | 16 | Native recall | 0.94 |
| Jaccard | 0.84 | RMSD | - |
| HB strict | 4 | Strict recall | 0.31 |
| HB same residue+role | 4 | HB role recall | 0.36 |
| HB same residue | 6 | HB residue recall | 0.55 |
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
All stored poses for this docking hit
| Pose | Final rank | Inter norm | Score | HB | CT | CT overlap | CT recall | HB role rec. | RMSD | Excluded | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 630 | 1.4925265336114306 | -1.24603 | -31.9737 | 11 | 18 | 16 | 0.94 | 0.36 | - | no | Current |
| 649 | 3.8213105660036932 | -1.45275 | -27.6741 | 16 | 19 | 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
-31.974kcal/mol
Ligand efficiency (LE)
-1.5226kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-12.987
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
21HA
Physicochemical properties
Molecular weight
302.3Da
Lipinski: ≤ 500 Da
LogP (cLogP)
-1.34
Lipinski: ≤ 5
Rotatable bonds
8
Conformational strain (MMFF94s)
Strain energy (ΔE)
51.52kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
171.47kcal/mol
Minimised FF energy
119.96kcal/mol
SASA & burial
✓ computed
SASA (unbound)
488.7Ų
Total solvent-accessible surface area of free ligand
BSA total
417.0Ų
Buried surface area upon binding
BSA apolar
290.9Ų
Hydrophobic contacts buried
BSA polar
126.2Ų
Polar contacts buried
Fraction buried
85.3%
> 60 % indicates good pocket engagement
Lipophilic contact ratio
69.7%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA
-2086.1Ų
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
2417.4Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA
644.0Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)