Docking pose detail

Molecular metrics status: done

Cached molecular metrics are available for this pose.

Metrics cached · SASA missing

py3Dmol interaction viewer

Left: interactive complex viewer. Right: clickable PLIP-like interaction summary. Clicking an interaction thickens and highlights it in the 3D view.

Strict H-bonds Permissive H-bonds

Molecular report

Full metrics ↗

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

✓ Excellent LE (-0.649 kcal/mol/HA) ✓ Good fit quality (FQ -6.59) ✗ Very high strain energy (54.6 kcal/mol) ✗ No H-bonds detected ✗ Geometry warnings ℹ SASA not computed

Score

-23.352

kcal/mol

-0.649

kcal/mol/HA

Fit Quality

-6.59

FQ (Leeson)

HAC

heavy atoms

489

LogP

1.10

cLogP

Strain ΔE

54.6 kcal/mol

SASA buried

computing…

Overall: Promising but geometrically suspicious

Binding evidence: strong

Native-like contacts: strong

Ligand efficiency: excellent

Geometry reliability: low

Reason: geometry warning, clashes, strain 54.6 kcal/mol

Interaction summary

Collapsible panels

H-bonds 0 Hydrophobic 24 π–π 1 Clashes 8 Severe clashes 1

Final rank	56.54576605249137	Score	-23.3516
Inter norm	-0.663584	Intra norm	0.0149278
Top1000	no	Excluded	yes
Contacts	19	H-bonds	0
Artifact reason	excluded; geometry warning; 16 clashes; 1 protein clash
Residues	A:ALA32;A:ARG48;A:ASP52;A:ILE45;A:LEU94;A:LYS57;A:MET53;A:NDP301;A:PHE56;A:PHE91;A:SER44;A:THR180;A:THR83;A:TRP47;A:TYR162;A:VAL156;A:VAL30;A:VAL31;A:VAL49

Protein summary

225 residues

Protein target	T03	Atoms	3428
Residues	225	Chains	2
Residue summary	LEU:380; ARG:360; VAL:272; LYS:264; ALA:240; GLU:240; PRO:224; PHE:180; THR:154; ILE:152; SER:132; TYR:126; GLN:119; ASN:98; GLY:84; NDP:74

Native ligand reference

★ reference

Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.

Name	3CL9	Contacts	20
Pose	Open native pose	H-bonds	9
IFP residues	A:ALA32; A:ARG97; A:ASP52; A:ILE45; A:LEU94; A:LYS57; A:MET53; A:NDP301; A:PHE56; A:PHE91; A:PRO88; A:SER86; A:THR180; A:THR54; A:THR83; A:TYR162; A:VAL156; A:VAL30; A:VAL31; A:VAL87
Current overlap	15	Native recall	0.75
Jaccard	0.62	RMSD	-
H-bond strict	0	Strict recall	0.00
H-bond same residue+role	0	Role recall	0.00
H-bond same residue	0	Residue recall	0.00

Hydrogen bonds

No hydrogen bonds detected for this pose.

π–π interactions

Native π–π recall is disabled because no explicit native π–π reference was stored.

Hydrophobic contacts

Clashes

All stored poses for this docking hit

Pose	Final rank	Inter norm	Score	HB	Contacts	Native overlap	Native recall	HB role recall	RMSD	Excluded
1099	5.880162500481681	-0.598825	-21.2365	0	16	13	0.65	0.00	-	no	Open
1097	6.2999168472986256	-0.62523	-23.1724	1	18	14	0.70	0.00	-	no	Open
1095	6.463329768362662	-0.726168	-26.8095	2	20	18	0.90	0.20	-	no	Open
1093	56.06886698367545	-0.634917	-21.9387	0	17	15	0.75	0.00	-	yes	Open
1096	56.41975818951318	-0.614164	-24.4448	0	17	13	0.65	0.00	-	yes	Open
1100	56.54576605249137	-0.663584	-23.3516	0	19	15	0.75	0.00	-	yes	Current
1094	58.79859746809286	-0.574284	-19.1552	1	15	14	0.70	0.20	-	yes	Open
1098	60.019706225636554	-0.716311	-23.4113	0	20	17	0.85	0.00	-	yes	Open

Molecular metrics

FreeSASA-based burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.

✓ Metrics available

Scoring & efficiency

Docking score -23.352kcal/mol

Ligand efficiency (LE) -0.6487kcal/mol/HA

Score / heavy atom count

Fit quality (FQ) -6.593

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

Heavy atom count 36HA

Physicochemical properties

Molecular weight 488.7Da

Lipinski: ≤ 500 Da

LogP (cLogP) 1.10

Lipinski: ≤ 5

Rotatable bonds 6

Conformational strain (MMFF94s)

Strain energy (ΔE) 54.61kcal/mol

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

Docked FF energy 230.13kcal/mol

Minimised FF energy 175.52kcal/mol

SASA & burial (FreeSASA)

not yet run

SASA has not been computed yet for this pose. Queue a background recompute to populate FreeSASA burial metrics without blocking the page.

OSA_Lib_88