FAIRMol

OHD_Babesia_19

Pose ID 5453 Compound 3354 Pose 35

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
T09
L. major DHFR-TS L. major
Ligand OHD_Babesia_19

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 mixed SASA done
Strain ΔE
29.8 kcal/mol
Protein clashes
2
Internal clashes
2
Native overlap
contact recall 0.33, Jaccard 0.26, H-bond role recall 0.17
Burial
78%
Hydrophobic fit
73%
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 (-0.678 kcal/mol/HA) ✓ Good fit quality (FQ -6.89) ✓ Strong H-bond network (7 bonds) ✓ Deep burial (78% SASA buried) ✓ Lipophilic contacts well-matched (73%) ✗ High strain energy (29.8 kcal/mol) ✗ Geometry warnings ✗ Many internal clashes (23)
Score
-24.414
kcal/mol
LE
-0.678
kcal/mol/HA
Fit Quality
-6.89
FQ (Leeson)
HAC
36
heavy atoms
MW
498
Da
LogP
1.02
cLogP
Strain ΔE
29.8 kcal/mol
SASA buried
78%
Lipo contact
73% BSA apolar/total
SASA unbound
702 Ų
Apolar buried
399 Ų

Interaction summary

HB 7 HY 24 PI 0 CLASH 2

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

PI · π–π interactions
No pi · π–π interactions detected for this pose.

HY · Hydrophobic contacts

CLASH · Clashes
Final rank4.325Score-24.414
Inter norm-0.758Intra norm0.080
Top1000noExcludedno
Contacts13H-bonds7
Artifact reasongeometry warning; 23 clashes; 2 protein clashes; moderate strain Δ 29.8
Residues
NDP301 ALA32 ARG48 ASP52 ILE182 ILE45 MET53 PRO50 PRO88 SER44 SER86 TRP47 VAL49

Native ligand reference

★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
Name3CL9Contacts21
PoseOpen native poseHB0
IFP residues
NDP301 ALA32 ARG97 ASP52 GLY157 ILE45 LEU94 LYS57 MET53 PHE55 PHE56 PHE91 PRO88 SER86 THR180 THR83 TYR162 VAL156 VAL30 VAL31 VAL87
Current overlap7Native recall0.33
Jaccard0.26RMSD-
HB strict0Strict recall0.00
HB same residue+role1HB role recall0.17
HB same residue1HB residue recall0.17

Protein summary

511 residues
Protein targetT09Atoms8170
Residues511Chains2
Residue summaryLEU:1064; ARG:840; LYS:572; GLU:570; VAL:528; PHE:460; ILE:456; ALA:440; PRO:420; THR:406; TYR:357; ASP:312; GLN:289; ASN:238; SER:231; GLY:224

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:NDP301

All stored poses for this docking hit

PoseFinal rankInter normScoreHBCTCT overlapCT recallHB role rec.RMSDExcluded
35 4.325126977199668 -0.75832 -24.4142 7 13 7 0.33 0.17 - no Current
35 5.730150167730409 -0.580774 -21.1521 8 16 0 0.00 0.00 - no Open
44 6.004742592877343 -0.677685 -20.7958 11 10 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 -24.414kcal/mol
Ligand efficiency (LE) -0.6782kcal/mol/HA
Score / heavy atom count
Fit quality (FQ) -6.893
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count 36HA

Physicochemical properties
Molecular weight 497.5Da
Lipinski: ≤ 500 Da
LogP (cLogP) 1.02
Lipinski: ≤ 5
Rotatable bonds 8

Conformational strain (MMFF94s)
Strain energy (ΔE) 29.77kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy 123.96kcal/mol
Minimised FF energy 94.19kcal/mol

SASA & burial

✓ computed
SASA (unbound) 702.4Ų
Total solvent-accessible surface area of free ligand
BSA total 546.3Ų
Buried surface area upon binding
BSA apolar 399.0Ų
Hydrophobic contacts buried
BSA polar 147.3Ų
Polar contacts buried
Fraction buried 77.8%
> 60 % indicates good pocket engagement
Lipophilic contact ratio 73.0%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA -3259.8Ų
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 4428.5Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA 1695.9Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)