FAIRMol

TC357

Pose ID 2274 Compound 1543 Pose 241

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
T04
L. major PTR1 L. major
Ligand TC357
PDB7PXX↗

3D complex viewer

Strict H-bonds Permissive H-bonds
Viewer legend
Protein receptor
Pocket residues
Cofactor context
Docked ligand
Overall assessment
Promising SASA cached
Promising but geometrically suspicious
Binding strong Geometry low Native strong SASA done
Strain ΔE
14.9 kcal/mol
Protein clashes
2
Internal clashes
7
Native overlap
contact recall 0.58, Jaccard 0.58, H-bond role recall 0.40
Burial
81%
Hydrophobic fit
81%
Reason: 7 internal clashes
2 protein-contact clashes 7 intramolecular clashes
Molecular report
Full metrics ↗
Promising Reasonable quality metrics. Warrants further investigation.
✓ Excellent LE (-1.276 kcal/mol/HA) ✓ Good fit quality (FQ -10.46) ✓ Good H-bonds (5 bonds) ✓ Deep burial (81% SASA buried) ✓ Lipophilic contacts well-matched (81%) ✗ Moderate strain (14.9 kcal/mol) ✗ Geometry warnings ✗ Minor protein-contact clashes (2) ✗ Internal clashes (7)
Score
-24.235
kcal/mol
LE
-1.276
kcal/mol/HA
Fit Quality
-10.46
FQ (Leeson)
HAC
19
heavy atoms
MW
264
Da
LogP
0.61
cLogP
Strain ΔE
14.9 kcal/mol
SASA buried
81%
Lipo contact
81% BSA apolar/total
SASA unbound
536 Ų
Apolar buried
351 Ų

Interaction summary

HB 5 HY 15 PI 4 CLASH 0

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
No clash · clashes detected for this pose.
Final rank-0.260Score-24.235
Inter norm-1.492Intra norm0.217
Top1000noExcludedno
Contacts11H-bonds5
Artifact reasongeometry warning; 7 clashes; 2 protein contact clashes; 1 severe cofactor-context clash
Residues
ARG17 HIS241 LEU188 LEU226 LEU229 MET233 NDP302 PHE113 SER111 TYR194 ARG287

Native ligand reference

★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
Name7PXXContacts19
PoseOpen native poseHB0
IFP residues
ARG17 ASP181 GLY225 HIS241 LEU188 LEU226 LEU229 LYS198 MET233 NDP302 PHE113 PRO115 SER111 SER112 SER227 TYR191 TYR194 VAL230 ARG287
Current overlap11Native recall0.58
Jaccard0.58RMSD-
HB strict2Strict recall0.33
HB same residue+role2HB role recall0.40
HB same residue2HB residue recall0.40

Protein summary

308 residues
Protein targetT04Atoms4210
Residues308Chains3
Residue summaryLEU:494; ALA:421; ARG:384; VAL:368; THR:295; TYR:231; SER:198; PRO:196; ILE:190; LYS:176; ASN:154; GLU:150; GLY:126; PHE:120; HIS:119; ASP:108

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:NDP302

All stored poses for this docking hit

PoseFinal rankInter normScoreHBCTCT overlapCT recallHB role rec.RMSDExcluded
241 -0.2602322927070613 -1.49206 -24.2352 5 11 11 0.58 0.40 - no Current
230 0.11414567344590305 -1.52252 -27.8124 5 13 12 0.63 0.60 - no Open
362 4.19212631956662 -1.22635 -20.7485 6 12 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 -24.235kcal/mol
Ligand efficiency (LE) -1.2755kcal/mol/HA
Score / heavy atom count
Fit quality (FQ) -10.455
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count 19HA

Physicochemical properties
Molecular weight 264.3Da
Lipinski: ≤ 500 Da
LogP (cLogP) 0.61
Lipinski: ≤ 5
Rotatable bonds 7

Conformational strain (MMFF94s)
Strain energy (ΔE) 14.94kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy 42.50kcal/mol
Minimised FF energy 27.56kcal/mol

SASA & burial

✓ computed
SASA (unbound) 536.0Ų
Total solvent-accessible surface area of free ligand
BSA total 434.4Ų
Buried surface area upon binding
BSA apolar 350.6Ų
Hydrophobic contacts buried
BSA polar 83.8Ų
Polar contacts buried
Fraction buried 81.0%
> 60 % indicates good pocket engagement
Lipophilic contact ratio 80.7%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA -1608.7Ų
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 2179.4Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA 1018.3Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)