FAIRMol

KB_Leish_46

Pose ID 13657 Compound 4901 Pose 99

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
T21
T. cruzi R5P T. cruzi
Ligand KB_Leish_46
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 medium Native strong SASA done
Strain ΔE
31.1 kcal/mol
Protein clashes
2
Internal clashes
2
Native overlap
contact recall 0.86, Jaccard 0.86, H-bond role recall 0.44
Burial
67%
Hydrophobic fit
88%
Reason: no major geometry red flags detected
2 protein-contact clashes
Molecular report
Full metrics ↗
Weak Marginal quality. Consider only alongside better-scoring alternatives.
✓ Excellent LE (-0.856 kcal/mol/HA) ✓ Good fit quality (FQ -8.42) ✓ Strong H-bond network (6 bonds) ✓ Deep burial (67% SASA buried) ✓ Lipophilic contacts well-matched (88%) ✗ Very high strain energy (31.1 kcal/mol) ✗ Geometry warnings ✗ Many internal clashes (13)
Score
-27.397
kcal/mol
LE
-0.856
kcal/mol/HA
Fit Quality
-8.42
FQ (Leeson)
HAC
32
heavy atoms
MW
477
Da
LogP
5.03
cLogP
Final rank
4.7219
rank score
Inter norm
-0.846
normalised
Contacts
12
H-bonds 7
Strain ΔE
31.1 kcal/mol
SASA buried
67%
Lipo contact
88% BSA apolar/total
SASA unbound
664 Ų
Apolar buried
394 Ų

Interaction summary

HBD 1 HBA 5 HY 3 PI 1 CLASH 2

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.
Name3K7OContacts14
PoseOpen native poseHB0
IFP residues
ARG137 ARG141 ASN103 HIS102 HIS138 ASP10 CYS69 GLY70 GLY74 HIS11 ILE73 PRO12 SER71 TYR46
Current overlap12Native recall0.86
Jaccard0.86RMSD-
HB strict5Strict recall0.42
HB same residue+role4HB role recall0.44
HB same residue4HB residue recall0.50

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
130 2.3471681233735677 -0.668234 -23.0353 3 12 0 0.00 0.00 - no Open
99 4.72186238856729 -0.846319 -27.3972 7 12 12 0.86 0.44 - no Current

Molecular metrics

RDKit SASA burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
✓ Metrics available

Scoring & efficiency
Docking score -27.397kcal/mol
Ligand efficiency (LE) -0.8562kcal/mol/HA
Score / heavy atom count
Fit quality (FQ) -8.420
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count 32HA

Physicochemical properties
Molecular weight 477.4Da
Lipinski: ≤ 500 Da
LogP (cLogP) 5.03
Lipinski: ≤ 5
Rotatable bonds 5

Conformational strain (MMFF94s)
Strain energy (ΔE) 31.12kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy 96.15kcal/mol
Minimised FF energy 65.03kcal/mol

SASA & burial

✓ computed
SASA (unbound) 663.9Ų
Total solvent-accessible surface area of free ligand
BSA total 446.3Ų
Buried surface area upon binding
BSA apolar 393.8Ų
Hydrophobic contacts buried
BSA polar 52.5Ų
Polar contacts buried
Fraction buried 67.2%
> 60 % indicates good pocket engagement
Lipophilic contact ratio 88.2%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA -2229.2Ų
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 2482.0Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA 844.2Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)