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.

✓ Good LE (-0.348 kcal/mol/HA) ✓ Good fit quality (FQ -3.42) ✓ Strong H-bond network (10 bonds) ✗ High strain energy (17.5 kcal/mol) ✗ Geometry warnings ℹ SASA not computed

Score

-11.139

kcal/mol

-0.348

kcal/mol/HA

Fit Quality

-3.42

FQ (Leeson)

HAC

heavy atoms

438

LogP

4.28

cLogP

Strain ΔE

17.5 kcal/mol

SASA buried

computing…

Overall: Promising but geometrically suspicious

Binding evidence: strong

Native-like contacts: strong

Ligand efficiency: good

Geometry reliability: low

Reason: geometry warning, clashes, strain 17.5 kcal/mol

Interaction summary

Collapsible panels

H-bonds 10 Hydrophobic 17 π–π 3 Clashes 10 Severe clashes 2

Final rank	8.564788593892708	Score	-11.139
Inter norm	-0.634227	Intra norm	0.286133
Top1000	no	Excluded	yes
Contacts	14	H-bonds	10
Artifact reason	excluded; geometry warning; 14 clashes; 2 protein clashes; high strain Δ 23.9
Residues	A:ARG17;A:HIS241;A:LEU18;A:LEU188;A:LEU226;A:LEU229;A:MET233;A:NDP302;A:PHE113;A:PRO115;A:SER111;A:TYR191;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	13	Native recall	0.68
Jaccard	0.65	RMSD	-
H-bond strict	4	Strict recall	0.67
H-bond same residue+role	3	Role recall	0.60
H-bond same residue	3	Residue recall	0.60

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
543	5.490556828852284	-0.693547	-19.5059	7	15	11	0.58	0.40	-	no	Open
1297	5.582546231806956	-0.804963	-20.1625	8	17	0	0.00	0.00	-	no	Open
1342	6.306758036047064	-0.646186	-14.9631	3	13	0	0.00	0.00	-	no	Open
1298	7.501657024335448	-0.939527	-26.2086	16	15	0	0.00	0.00	-	yes	Open
544	8.564788593892708	-0.634227	-11.139	10	14	13	0.68	0.60	-	yes	Current
1343	11.216348811778495	-0.671287	-17.9163	7	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 -11.139kcal/mol

Ligand efficiency (LE) -0.3481kcal/mol/HA

Score / heavy atom count

Fit quality (FQ) -3.423

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

Heavy atom count 32HA

Physicochemical properties

Molecular weight 437.5Da

Lipinski: ≤ 500 Da

LogP (cLogP) 4.28

Lipinski: ≤ 5

Rotatable bonds 6

Conformational strain (MMFF94s)

Strain energy (ΔE) 17.55kcal/mol

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

Docked FF energy 55.31kcal/mol

Minimised FF energy 37.76kcal/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.

MK219