Docking pose detail

Molecular metrics status: done

RDKit SASA-based burial metrics are cached.

SASA cached

T11

L. infantum SIR2 L. infantum

Ligand KB_HAT_43

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 strong SASA done

Strain ΔE

39.9 kcal/mol

Protein clashes

Internal clashes

Native overlap

contact recall 0.78, Jaccard 0.67, H-bond role recall 0.40

Burial

75%

Hydrophobic fit

79%

Reason: no major geometry red flags detected

1 protein-contact clashes 52% of hydrophobic surface appears solvent-exposed (11/21 atoms). Partial exposure is common but may limit selectivity and membrane permeability.

EcoTox / ADMET In-silico prediction only

Fish LC₅₀

Cat. 2 — Toxic (1–10 mg/L)

Daphnia EC₅₀

Cat. 1 — Very toxic (≤1 mg/L)

Algae IC₅₀

Cat. 2 — Toxic (1–10 mg/L)

Bioaccum.

Not B (BCF≤2000)

Persistent

ADMET alerts (in-silico)

hERG Medium Ames Clear DILI Risk

Molecular report

Full metrics ↗

Weak Marginal quality. Consider only alongside better-scoring alternatives.

✓ Excellent LE (-0.670 kcal/mol/HA) ✓ Good fit quality (FQ -6.33) ✓ Deep burial (75% SASA buried) ✓ Lipophilic contacts well-matched (79%) ✗ Very high strain energy (39.9 kcal/mol) ✗ Geometry warnings ✗ Internal clashes (8)

Score

-18.775

kcal/mol

-0.670

kcal/mol/HA

Fit Quality

-6.33

FQ (Leeson)

HAC

heavy atoms

401

LogP

4.63

cLogP

Final rank

2.9117

rank score

Inter norm

-0.856

normalised

Contacts

H-bonds 3

Strain ΔE

39.9 kcal/mol

SASA buried

75%

Lipo contact

79% BSA apolar/total

SASA unbound

725 Å²

Apolar buried

430 Å²

Interaction summary

HBD 2 HY 7 PI 3 CLASH 1

HBD/HBA · H-bonds (geometric)

HBD = ligand donates H · HBA = ligand accepts H · ~ = weak (≥110°). Mode: strict. Residues: 2.

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: strict.

Name	5OL0	Contacts	18
Pose	Open native pose	HB	0
IFP residues	ASN193 GLN220 GLU192 GLY191 HIS144 HIS222 ILE126 LEU194 LEU226 PHE189 PHE190 PHE199 PHE74 PRO223 THR71 VAL187 VAL188 VAL221
Current overlap	14	Native recall	0.78
Jaccard	0.67	RMSD	-
HB strict	2	Strict recall	0.40
HB same residue+role	2	HB role recall	0.40
HB same residue	2	HB residue recall	0.50

Protein summary

287 residues

Protein target	T11	Atoms	4391
Residues	287	Chains	1
Residue summary	LEU:627; ARG:432; VAL:384; GLU:316; PHE:300; ILE:285; ALA:260; PRO:238; HIS:187; ASP:157; LYS:154; SER:154; THR:154; GLY:147; ASN:140; TYR:126

All stored poses for this docking hit

Pose	Final rank	Inter norm	Score	HB	CT	CT overlap	CT recall	HB role rec.	RMSD	Excluded
93	2.9117050969935185	-0.856341	-18.7748	3	17	14	0.78	0.40	-	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 -18.775kcal/mol

Ligand efficiency (LE) -0.6705kcal/mol/HA

Score / heavy atom count

Fit quality (FQ) -6.330

LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe

Heavy atom count 28HA

Physicochemical properties

Molecular weight 400.6Da

Lipinski: ≤ 500 Da

LogP (cLogP) 4.63

Lipinski: ≤ 5

Rotatable bonds 6

Conformational strain (MMFF94s)

Strain energy (ΔE) 39.90kcal/mol

< 5 good · 5–10 marginal · > 10 problematic

Docked FF energy 32.18kcal/mol

Minimised FF energy -7.72kcal/mol

SASA & burial

✓ computed

SASA (unbound) 725.1Å²

Total solvent-accessible surface area of free ligand

BSA total 541.9Å²

Buried surface area upon binding

BSA apolar 429.7Å²

Hydrophobic contacts buried

BSA polar 112.2Å²

Polar contacts buried

Fraction buried 74.7%

> 60 % indicates good pocket engagement

Lipophilic contact ratio 79.3%

BSA apolar / BSA total — high = hydrophobic driver

Δ Non-polar SASA -2042.2Å²

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 2380.0Å²

Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)

Complex non-polar SASA 936.4Å²

Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)