Docking pose detail

Molecular metrics status: done

RDKit SASA-based burial metrics are cached.

SASA cached

T11

L. infantum SIR2 L. infantum

Ligand Z19836822

3D complex viewer

Strict H-bonds Permissive H-bonds

Viewer legend

Protein receptor

Pocket residues

Cofactor context

Docked ligand

Overall assessment

Reject SASA cached

Promising but geometrically suspicious

Binding strong Geometry low Native strong SASA done

Strain ΔE

42.3 kcal/mol

Protein clashes

Internal clashes

Native overlap

contact recall 0.94, Jaccard 0.81, H-bond role recall 0.00

Burial

76%

Hydrophobic fit

78%

Reason: strain 42.3 kcal/mol

strain ΔE 42.3 kcal/mol 3 protein-contact clashes 3 intramolecular clashes

EcoTox / ADMET In-silico prediction only

Fish LC₅₀

Cat. 3 — Harmful (10–100 mg/L)

Daphnia EC₅₀

Cat. 3 — Harmful (10–100 mg/L)

Algae IC₅₀

Cat. 3 — Harmful (10–100 mg/L)

Bioaccum.

Not B (BCF≤2000)

Persistent

ADMET alerts (in-silico)

hERG High Ames Clear DILI Low

Molecular report

Full metrics ↗

Reject Multiple quality flags — this pose should be deprioritised or discarded.

✓ Good LE (-0.358 kcal/mol/HA) ✓ Good fit quality (FQ -3.76) ✓ Deep burial (76% SASA buried) ✓ Lipophilic contacts well-matched (78%) ✗ Extreme strain energy (42.3 kcal/mol) ✗ Geometry warnings ✗ Minor protein-contact clashes (4) ✗ Many internal clashes (15)

Score

-14.682

kcal/mol

-0.358

kcal/mol/HA

Fit Quality

-3.76

FQ (Leeson)

HAC

heavy atoms

600

LogP

3.41

cLogP

Final rank

1.7168

rank score

Inter norm

-0.603

normalised

Contacts

H-bonds 3

Strain ΔE

42.3 kcal/mol

SASA buried

76%

Lipo contact

78% BSA apolar/total

SASA unbound

908 Å²

Apolar buried

543 Å²

Interaction summary

HBA 1 HY 9 PI 4 CLASH 3

HBD/HBA · H-bonds (geometric)

HBD = ligand donates H · HBA = ligand accepts H · ~ = weak (≥110°). Mode: strict. Residues: 1.

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	17	Native recall	0.94
Jaccard	0.81	RMSD	-
HB strict	0	Strict recall	0.00
HB same residue+role	0	HB role recall	0.00
HB same residue	0	HB residue recall	0.00

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
513	1.7167527597385202	-0.602935	-14.6822	3	20	17	0.94	0.00	-	no	Current
508	4.027457693751525	-0.456823	-12.3055	5	13	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 -14.682kcal/mol

Ligand efficiency (LE) -0.3581kcal/mol/HA

Score / heavy atom count

Fit quality (FQ) -3.763

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

Heavy atom count 41HA

Physicochemical properties

Molecular weight 599.8Da

Lipinski: ≤ 500 Da

LogP (cLogP) 3.41

Lipinski: ≤ 5

Rotatable bonds 10

Conformational strain (MMFF94s)

Strain energy (ΔE) 42.27kcal/mol

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

Docked FF energy 3.06kcal/mol

Minimised FF energy -39.21kcal/mol

SASA & burial

✓ computed

SASA (unbound) 907.5Å²

Total solvent-accessible surface area of free ligand

BSA total 692.7Å²

Buried surface area upon binding

BSA apolar 542.7Å²

Hydrophobic contacts buried

BSA polar 150.1Å²

Polar contacts buried

Fraction buried 76.3%

> 60 % indicates good pocket engagement

Lipophilic contact ratio 78.3%

BSA apolar / BSA total — high = hydrophobic driver

Δ Non-polar SASA -2158.2Å²

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 949.2Å²

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