FAIRMol

Z18651473

Pose ID 13515 Compound 1632 Pose 636

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
T20
T. brucei TR (Z-site (fragment hotspot)) T. brucei Z-site (fragment hotspot)
Ligand Z18651473
PDB9IFH↗

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
22.2 kcal/mol
Protein clashes
2
Internal clashes
2
Native overlap
contact recall 0.75, Jaccard 0.55, H-bond role recall 0.00
Burial
46%
Hydrophobic fit
74%
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 (-0.546 kcal/mol/HA) ✓ Good fit quality (FQ -5.33) ✓ Strong H-bond network (6 bonds) ✓ Good burial (46% SASA buried) ✓ Lipophilic contacts well-matched (74%) ✗ High strain energy (22.2 kcal/mol) ✗ Geometry warnings ✗ Internal clashes (5)
Score
-16.943
kcal/mol
LE
-0.546
kcal/mol/HA
Fit Quality
-5.33
FQ (Leeson)
HAC
31
heavy atoms
MW
437
Da
LogP
4.48
cLogP
Strain ΔE
22.2 kcal/mol
SASA buried
46%
Lipo contact
74% BSA apolar/total
SASA unbound
705 Ų
Apolar buried
242 Ų

Interaction summary

HB 6 HY 11 PI 2 CLASH 2
Final rank3.106Score-16.943
Inter norm-0.613Intra norm0.066
Top1000noExcludedno
Contacts9H-bonds6
Artifact reasongeometry warning; 5 clashes; 2 protein clashes; moderate strain Δ 22.2
Residues
ASN402 GLU467 LYS407 MET393 PHE396 PRO398 SER394 SER395 THR397

Protein summary

492 residues
Protein targetT20Atoms7539
Residues492Chains1
Residue summaryVAL:768; LYS:704; LEU:703; ILE:532; GLU:450; THR:434; ARG:408; PHE:400; ALA:390; ASN:350; PRO:350; GLY:336; SER:319; TYR:294; ASP:264; MET:221

Receptor context

1 kept / 0 excluded
Receptor context filtering: interactions and SASA are computed against protein atoms plus allowed cofactors/ions. Native ligand-like HETATM partners are excluded from scoring.
Kept context 1 Excluded HETATM 0
Kept cofactors / ions
A:FAD501

Native ligand reference

★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
Name9IFHContacts8
PoseOpen native poseHB0
IFP residues
ASN402 GLU467 LEU399 PHE396 PRO398 SER394 SER470 THR397
Current overlap6Native recall0.75
Jaccard0.55RMSD-
HB strict0Strict recall0.00
HB same residue+role0HB role recall0.00
HB same residue0HB residue recall0.00

HB · H-bonds
Mode: strict. Count shows atom-level H-bonds; unique residues in summary: 0.

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

HY · Hydrophobic contacts

CLASH · Clashes

All stored poses for this docking hit

PoseFinal rankInter normScoreHBCTCT overlapCT recallHB role rec.RMSDExcluded
630 0.2532786233039106 -0.806142 -24.2196 2 13 0 0.00 0.00 - no Open
627 2.517126991976535 -0.947428 -26.4829 6 14 0 0.00 0.00 - no Open
636 3.106264125904273 -0.612697 -16.9428 6 9 6 0.75 0.00 - 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 -16.943kcal/mol
Ligand efficiency (LE) -0.5465kcal/mol/HA
Score / heavy atom count
Fit quality (FQ) -5.325
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count 31HA

Physicochemical properties
Molecular weight 437.5Da
Lipinski: ≤ 500 Da
LogP (cLogP) 4.48
Lipinski: ≤ 5
Rotatable bonds 6

Conformational strain (MMFF94s)
Strain energy (ΔE) 22.23kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy 103.46kcal/mol
Minimised FF energy 81.23kcal/mol

SASA & burial

✓ computed
SASA (unbound) 705.2Ų
Total solvent-accessible surface area of free ligand
BSA total 327.0Ų
Buried surface area upon binding
BSA apolar 242.1Ų
Hydrophobic contacts buried
BSA polar 84.9Ų
Polar contacts buried
Fraction buried 46.4%
> 60 % indicates good pocket engagement
Lipophilic contact ratio 74.0%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA -3072.8Ų
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 4069.8Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA 1523.9Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)