FAIRMol

OHD_TbNat_42

Pose ID 91 Compound 592 Pose 91

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
T01
Human DHFR Human
Ligand OHD_TbNat_42
PDB5SD8↗

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 mixed SASA done
Strain ΔE
33.3 kcal/mol
Protein clashes
3
Internal clashes
3
Native overlap
contact recall 0.52, Jaccard 0.44, H-bond role recall 0.00
Burial
90%
Hydrophobic fit
85%
Reason: no major geometry red flags detected
3 protein-contact clashes 3 intramolecular clashes
Molecular report
Full metrics ↗
Weak Marginal quality. Consider only alongside better-scoring alternatives.
✓ Excellent LE (-0.868 kcal/mol/HA) ✓ Good fit quality (FQ -8.54) ✓ Good H-bonds (4 bonds) ✓ Deep burial (90% SASA buried) ✓ Lipophilic contacts well-matched (85%) ✗ Very high strain energy (33.3 kcal/mol) ✗ Geometry warnings ✗ Many internal clashes (19)
Score
-27.778
kcal/mol
LE
-0.868
kcal/mol/HA
Fit Quality
-8.54
FQ (Leeson)
HAC
32
heavy atoms
MW
911
Da
LogP
9.79
cLogP
Strain ΔE
33.3 kcal/mol
SASA buried
90%
Lipo contact
85% BSA apolar/total
SASA unbound
718 Ų
Apolar buried
548 Ų

Interaction summary

HB 4 HY 24 PI 2 CLASH 3
Final rank3.570Score-27.778
Inter norm-0.890Intra norm0.022
Top1000noExcludedno
Contacts15H-bonds4
Artifact reasongeometry warning; 19 clashes; 1 protein clash; high strain Δ 33.3
Residues
ALA10 ARG29 ASP22 GLU31 GLY21 ILE61 LEU23 LEU28 LEU68 NAP201 PHE32 PHE35 PRO27 SER60 TRP25

Protein summary

200 residues
Protein targetT01Atoms3128
Residues200Chains2
Residue summaryLYS:374; LEU:361; GLU:240; VAL:224; ARG:192; PHE:180; ILE:171; PRO:168; ASN:140; SER:132; TYR:126; GLN:119; ASP:108; MET:102; THR:98; GLY:91

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:NAP201

Native ligand reference

★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
Name5SD8Contacts21
PoseOpen native poseHB0
IFP residues
ALA10 ASN65 ASP22 GLN36 GLU31 GLY117 GLY21 ILE61 ILE8 LEU23 LEU68 NAP201 PHE32 PHE35 PRO62 SER60 THR137 THR57 TYR122 VAL116 VAL9
Current overlap11Native recall0.52
Jaccard0.44RMSD-
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
84 3.564492289984782 -0.885388 -27.0234 4 13 9 0.43 0.20 - no Open
91 3.569839844744623 -0.889957 -27.7782 4 15 11 0.52 0.00 - no Current
44 5.449017483671982 -0.97023 -29.4206 9 17 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 -27.778kcal/mol
Ligand efficiency (LE) -0.8681kcal/mol/HA
Score / heavy atom count
Fit quality (FQ) -8.537
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count 32HA

Physicochemical properties
Molecular weight 910.6Da
Lipinski: ≤ 500 Da
LogP (cLogP) 9.79
Lipinski: ≤ 5
Rotatable bonds 6

Conformational strain (MMFF94s)
Strain energy (ΔE) 33.35kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy 105.82kcal/mol
Minimised FF energy 72.47kcal/mol

SASA & burial

✓ computed
SASA (unbound) 718.2Ų
Total solvent-accessible surface area of free ligand
BSA total 645.6Ų
Buried surface area upon binding
BSA apolar 547.7Ų
Hydrophobic contacts buried
BSA polar 98.0Ų
Polar contacts buried
Fraction buried 89.9%
> 60 % indicates good pocket engagement
Lipophilic contact ratio 84.8%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA -1661.9Ų
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 1677.9Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA 634.6Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)