FAIRMol

OHD_TC1_161

Pose ID 8184 Compound 1397 Pose 54

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
T13
T. brucei ODC (Active site) T. brucei Active site
Ligand OHD_TC1_161
PDB1F3T↗

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
20.5 kcal/mol
Protein clashes
7
Internal clashes
7
Native overlap
contact recall 0.79, Jaccard 0.75, H-bond role recall 0.71
Burial
80%
Hydrophobic fit
81%
Reason: 7 internal clashes
7 protein-contact clashes 7 intramolecular clashes
Molecular report
Full metrics ↗
Weak Marginal quality. Consider only alongside better-scoring alternatives.
✓ Excellent LE (-1.090 kcal/mol/HA) ✓ Good fit quality (FQ -10.04) ✓ Strong H-bond network (8 bonds) ✓ Deep burial (80% SASA buried) ✓ Lipophilic contacts well-matched (81%) ✗ High strain energy (20.5 kcal/mol) ✗ Geometry warnings ✗ Internal clashes (8)
Score
-28.343
kcal/mol
LE
-1.090
kcal/mol/HA
Fit Quality
-10.04
FQ (Leeson)
HAC
26
heavy atoms
MW
377
Da
LogP
0.95
cLogP
Final rank
4.0519
rank score
Inter norm
-1.208
normalised
Contacts
16
H-bonds 12
Strain ΔE
20.5 kcal/mol
SASA buried
80%
Lipo contact
81% BSA apolar/total
SASA unbound
570 Ų
Apolar buried
368 Ų

Interaction summary

HBD 2 HBA 6 HY 2 PI 2 CLASH 7

HBD/HBA · H-bonds (geometric)
HBD = ligand donates H · HBA = ligand accepts H · ~ = weak (≥110°). Mode: permissive. Residues: 6.

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.
Name1F3TContacts19
PoseOpen native poseHB0
IFP residues
ALA111 ALA67 ARG154 ARG277 ASP332 ASP88 CYS70 GLU274 GLY236 GLY237 GLY276 HIS197 LYS69 PHE238 PRO275 SER200 TYR278 TYR331 TYR389
Current overlap15Native recall0.79
Jaccard0.75RMSD-
HB strict5Strict recall0.56
HB same residue+role5HB role recall0.71
HB same residue5HB residue recall0.71

Protein summary

411 residues
Protein targetT13Atoms6340
Residues411Chains1
Residue summaryVAL:624; LEU:551; LYS:506; ARG:480; PHE:460; ILE:418; ASP:348; GLU:332; THR:322; TYR:315; PRO:308; ALA:290; SER:264; GLY:224; ASN:210; GLN:170

All stored poses for this docking hit

PoseFinal rankInter normScoreHBCTCT overlapCT recallHB role rec.RMSDExcluded
63 1.992548884312731 -1.30848 -32.1669 13 15 0 0.00 0.00 - no Open
98 3.3548680929980264 -1.08604 -27.0791 7 16 0 0.00 0.00 - no Open
66 3.7209418269626306 -0.960993 -21.8361 15 16 0 0.00 0.00 - no Open
54 4.05191409116451 -1.20808 -28.3426 12 16 15 0.79 0.71 - no Current
100 4.364750326690326 -0.79464 -19.9392 7 12 0 0.00 0.00 - no Open
52 5.016463742920565 -1.22923 -29.2776 16 21 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 -28.343kcal/mol
Ligand efficiency (LE) -1.0901kcal/mol/HA
Score / heavy atom count
Fit quality (FQ) -10.043
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count 26HA

Physicochemical properties
Molecular weight 376.8Da
Lipinski: ≤ 500 Da
LogP (cLogP) 0.95
Lipinski: ≤ 5
Rotatable bonds 7

Conformational strain (MMFF94s)
Strain energy (ΔE) 20.50kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy 76.77kcal/mol
Minimised FF energy 56.27kcal/mol

SASA & burial

✓ computed
SASA (unbound) 569.8Ų
Total solvent-accessible surface area of free ligand
BSA total 453.9Ų
Buried surface area upon binding
BSA apolar 367.8Ų
Hydrophobic contacts buried
BSA polar 86.0Ų
Polar contacts buried
Fraction buried 79.6%
> 60 % indicates good pocket engagement
Lipophilic contact ratio 81.0%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA -2538.2Ų
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 3461.2Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA 1371.0Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)