FAIRMol

OHD_Leishmania_190

Pose ID 13563 Compound 3563 Pose 5

DB SELECTIONDocking 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
T21
T. cruzi R5P T. cruzi
Ligand OHD_Leishmania_190
PDB3K7O↗

3D complex viewer

Strict H-bonds Permissive H-bonds
Viewer legend
Protein receptor
Pocket residues
Cofactor context
Docked ligand
Overall assessment
Weak SASA cached
Weak or marginal quality
Binding strong Geometry high Native strong SASA done
Strain ΔE
23.6 kcal/mol
Protein clashes
2
Internal clashes
2
Native overlap
contact recall 1.00, Jaccard 0.88, H-bond role recall 0.56
Burial
82%
Hydrophobic fit
69%
Reason: no major geometry red flags detected
2 protein-contact clashes 67% of hydrophobic surface is solvent-exposed (12/18 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
Not classified (>100 mg/L)
Daphnia EC₅₀
Not classified (>100 mg/L)
Algae IC₅₀
Cat. 3 — Harmful (10–100 mg/L)
Bioaccum.
Not B (BCF≤2000)
Persistent
No
ADMET alerts (in-silico)
hERG Low Ames Clear DILI Low
Molecular report
Full metrics ↗
Weak Marginal quality. Consider only alongside better-scoring alternatives.
✓ Excellent LE (-0.775 kcal/mol/HA) ✓ Good fit quality (FQ -6.95) ✓ Strong H-bond network (9 bonds) ✓ Deep burial (82% SASA buried) ✓ Lipophilic contacts well-matched (69%) ✗ High strain energy (23.6 kcal/mol) ✗ Geometry warnings ✗ Internal clashes (9)
Score
-18.602
kcal/mol
LE
-0.775
kcal/mol/HA
Fit Quality
-6.95
FQ (Leeson)
HAC
24
heavy atoms
MW
330
Da
LogP
2.27
cLogP
Final rank
3.3898
rank score
Inter norm
-1.043
normalised
Contacts
16
H-bonds 14
Strain ΔE
23.6 kcal/mol
SASA buried
82%
Lipo contact
69% BSA apolar/total
SASA unbound
566 Ų
Apolar buried
319 Ų

Interaction summary

HBD 1 HBA 8 HY 2 PI 2 CLASH 2

HBD/HBA · H-bonds (geometric)
HBD = ligand donates H · HBA = ligand accepts H · ~ = weak (≥110°). Mode: permissive. Residues: 7.

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.
Name3K7OContacts14
PoseOpen native poseHB0
IFP residues
ARG137 ARG141 ASN103 HIS102 HIS138 ASP10 CYS69 GLY70 GLY74 HIS11 ILE73 PRO12 SER71 TYR46
Current overlap14Native recall1.00
Jaccard0.88RMSD-
HB strict6Strict recall0.50
HB same residue+role5HB role recall0.56
HB same residue6HB residue recall0.75

Protein summary

305 residues
Protein targetT21Atoms4646
Residues305Chains2
Residue summaryARG:576; ILE:532; VAL:512; GLU:420; ALA:360; PHE:240; HIS:238; LYS:220; THR:210; LEU:190; PRO:168; TYR:168; GLY:154; SER:154; ASP:144; ASN:112

All stored poses for this docking hit

PoseFinal rankInter normScoreHBCTCT overlapCT recallHB role rec.RMSDExcluded
5 3.3898258245343604 -1.04253 -18.6023 14 16 14 1.00 0.56 - no Current
3 4.809353115414116 -1.08137 -20.8235 9 18 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 -18.602kcal/mol
Ligand efficiency (LE) -0.7751kcal/mol/HA
Score / heavy atom count
Fit quality (FQ) -6.946
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count 24HA

Physicochemical properties
Molecular weight 330.3Da
Lipinski: ≤ 500 Da
LogP (cLogP) 2.27
Lipinski: ≤ 5
Rotatable bonds 9

Conformational strain (MMFF94s)
Strain energy (ΔE) 23.61kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy 52.87kcal/mol
Minimised FF energy 29.26kcal/mol

SASA & burial

✓ computed
SASA (unbound) 566.1Ų
Total solvent-accessible surface area of free ligand
BSA total 463.2Ų
Buried surface area upon binding
BSA apolar 318.5Ų
Hydrophobic contacts buried
BSA polar 144.7Ų
Polar contacts buried
Fraction buried 81.8%
> 60 % indicates good pocket engagement
Lipophilic contact ratio 68.8%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA -2119.6Ų
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 2482.0Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA 764.1Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)