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 ↗

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

✓ Excellent LE (-1.407 kcal/mol/HA) ✓ Good fit quality (FQ -11.27) ✓ Good H-bonds (3 bonds) ✗ High strain energy (18.6 kcal/mol) ✗ Geometry warnings ℹ SASA not computed

Score

-25.319

kcal/mol

-1.407

kcal/mol/HA

Fit Quality

-11.27

FQ (Leeson)

HAC

heavy atoms

294

LogP

3.38

cLogP

Strain ΔE

18.6 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 18.6 kcal/mol

Interaction summary

Collapsible panels

H-bonds 3 Hydrophobic 16 π–π 4 Clashes 9 Severe clashes 1

Final rank	4.012611040853752	Score	-25.319
Inter norm	-1.47357	Intra norm	0.0669545
Top1000	no	Excluded	yes
Contacts	11	H-bonds	3
Artifact reason	excluded; geometry warning; 3 clashes; 1 protein clash; moderate strain Δ 18.6
Residues	A:ARG17;A:HIS241;A:LEU188;A:LEU226;A:LEU229;A:MET233;A:NDP302;A:PHE113;A:SER111;A:TYR194;D:ARG287

Protein summary

308 residues

Protein target	T04	Atoms	4210
Residues	308	Chains	3
Residue summary	LEU:494; ALA:421; ARG:384; VAL:368; THR:295; TYR:231; SER:198; PRO:196; ILE:190; LYS:176; ASN:154; GLU:150; GLY:126; PHE:120; HIS:119; ASP:108

Native ligand reference

★ reference

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

Name	7PXX	Contacts	19
Pose	Open native pose	H-bonds	8
IFP residues	A:ARG17; A:ASP181; A:GLY225; A:HIS241; A:LEU188; A:LEU226; A:LEU229; A:LYS198; A:MET233; A:NDP302; A:PHE113; A:PRO115; A:SER111; A:SER112; A:SER227; A:TYR191; A:TYR194; A:VAL230; D:ARG287
Current overlap	11	Native recall	0.58
Jaccard	0.58	RMSD	-
H-bond strict	2	Strict recall	0.33
H-bond same residue+role	2	Role recall	0.40
H-bond same residue	2	Residue recall	0.40

Hydrogen bonds

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

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
1049	1.343535483882045	-1.38109	-23.8647	1	9	9	0.47	0.00	-	no	Open
1499	1.8078054604477103	-1.29271	-20.4399	6	16	0	0.00	0.00	-	no	Open
1051	4.012611040853752	-1.47357	-25.319	3	11	11	0.58	0.40	-	yes	Current
1050	5.5690924832139475	-1.46121	-26.4522	7	11	11	0.58	0.60	-	yes	Open
1500	5.706484496626676	-1.51574	-25.6489	10	16	0	0.00	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 -25.319kcal/mol

Ligand efficiency (LE) -1.4066kcal/mol/HA

Score / heavy atom count

Fit quality (FQ) -11.273

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

Heavy atom count 18HA

Physicochemical properties

Molecular weight 294.4Da

Lipinski: ≤ 500 Da

LogP (cLogP) 3.38

Lipinski: ≤ 5

Rotatable bonds 3

Conformational strain (MMFF94s)

Strain energy (ΔE) 18.63kcal/mol

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

Docked FF energy 32.42kcal/mol

Minimised FF energy 13.80kcal/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.

Z56802793