FAIRMol

MK15

Pose ID 7013 Compound 3778 Pose 239

DB fairmolDocking pose analysis is being read from this database.
Compound detail Protein structures Back to compounds
Molecular metrics status: done
RDKit SASA-based burial metrics are cached.
SASA cached
T11
L. infantum SIR2 L. infantum
Ligand MK15

3D complex viewer

Strict H-bonds Permissive H-bonds
Viewer legend
Protein receptor
Pocket residues
Cofactor context
Docked ligand
Overall assessment
Weak SASA cached
Promising but geometrically suspicious
Binding strong Geometry low Native strong SASA done
Strain ΔE
35.7 kcal/mol
Protein clashes
0
Internal clashes
16
Native overlap
contact recall 0.78, Jaccard 0.58, H-bond role recall 0.20
Burial
74%
Hydrophobic fit
91%
Reason: 16 internal clashes
16 intramolecular clashes 45% of hydrophobic surface appears solvent-exposed (13/29 atoms). Partial exposure is common but may limit selectivity and membrane permeability.
Molecular report
Full metrics ↗
Weak Marginal quality. Consider only alongside better-scoring alternatives.
✓ Excellent LE (-0.686 kcal/mol/HA) ✓ Good fit quality (FQ -7.08) ✓ Good H-bonds (3 bonds) ✓ Deep burial (74% SASA buried) ✓ Lipophilic contacts well-matched (91%) ✗ Very high strain energy (35.7 kcal/mol) ✗ Geometry warnings ✗ Many internal clashes (16)
Score
-26.082
kcal/mol
LE
-0.686
kcal/mol/HA
Fit Quality
-7.08
FQ (Leeson)
HAC
38
heavy atoms
MW
525
Da
LogP
1.37
cLogP
Final rank
3.3767
rank score
Inter norm
-0.720
normalised
Contacts
20
H-bonds 7
Strain ΔE
35.7 kcal/mol
SASA buried
74%
Lipo contact
91% BSA apolar/total
SASA unbound
880 Ų
Apolar buried
591 Ų

Interaction summary

HBD 3 HY 7 PI 1 CLASH 0

HBD/HBA · H-bonds (geometric)
HBD = ligand donates H · HBA = ligand accepts H · ~ = weak (≥110°). Mode: strict. Residues: 3.

PI · π–π interactions
Native π–π recall is disabled because no explicit native π–π reference was stored.

HY · Hydrophobic contacts

CLASH · Clashes
No clash · clashes detected for this pose.

Native ligand reference

★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
Name5OL0Contacts18
PoseOpen native poseHB0
IFP residues
ASN193 GLN220 GLU192 GLY191 HIS144 HIS222 ILE126 LEU194 LEU226 PHE189 PHE190 PHE199 PHE74 PRO223 THR71 VAL187 VAL188 VAL221
Current overlap14Native recall0.78
Jaccard0.58RMSD-
HB strict1Strict recall0.20
HB same residue+role1HB role recall0.20
HB same residue2HB residue recall0.50

Protein summary

287 residues
Protein targetT11Atoms4391
Residues287Chains1
Residue summaryLEU:627; ARG:432; VAL:384; GLU:316; PHE:300; ILE:285; ALA:260; PRO:238; HIS:187; ASP:157; LYS:154; SER:154; THR:154; GLY:147; ASN:140; TYR:126

All stored poses for this docking hit

PoseFinal rankInter normScoreHBCTCT overlapCT recallHB role rec.RMSDExcluded
276 2.626855871654987 -0.602734 -21.686 7 15 0 0.00 0.00 - no Open
269 2.8133990966103637 -0.581227 -19.2795 3 16 0 0.00 0.00 - no Open
239 3.376666663328105 -0.719885 -26.0821 7 20 14 0.78 0.20 - no Current
259 4.985410015674755 -0.652969 -21.6298 10 17 0 0.00 0.00 - no Open
199 6.163691817053808 -0.7073 -23.7125 10 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.
✓ Metrics available

Scoring & efficiency
Docking score -26.082kcal/mol
Ligand efficiency (LE) -0.6864kcal/mol/HA
Score / heavy atom count
Fit quality (FQ) -7.076
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count 38HA

Physicochemical properties
Molecular weight 524.6Da
Lipinski: ≤ 500 Da
LogP (cLogP) 1.37
Lipinski: ≤ 5
Rotatable bonds 9

Conformational strain (MMFF94s)
Strain energy (ΔE) 35.71kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy 136.81kcal/mol
Minimised FF energy 101.09kcal/mol

SASA & burial

✓ computed
SASA (unbound) 880.2Ų
Total solvent-accessible surface area of free ligand
BSA total 651.1Ų
Buried surface area upon binding
BSA apolar 590.6Ų
Hydrophobic contacts buried
BSA polar 60.5Ų
Polar contacts buried
Fraction buried 74.0%
> 60 % indicates good pocket engagement
Lipophilic contact ratio 90.7%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA -2157.5Ų
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 2380.0Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA 966.0Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)