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 (-0.646 kcal/mol/HA) ✓ Good fit quality (FQ -5.87) ✓ Strong H-bond network (6 bonds) ✗ High strain energy (11.7 kcal/mol) ✗ Geometry warnings ℹ SASA not computed

Score

-16.141

kcal/mol

-0.646

kcal/mol/HA

Fit Quality

-5.87

FQ (Leeson)

HAC

heavy atoms

340

LogP

3.91

cLogP

Strain ΔE

11.7 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 11.7 kcal/mol

Interaction summary

Collapsible panels

H-bonds 6 Hydrophobic 24 π–π 4 Clashes 13 Severe clashes 1

Final rank	6.52878441319093	Score	-16.1407
Inter norm	-0.778144	Intra norm	0.132517
Top1000	no	Excluded	yes
Contacts	15	H-bonds	6
Artifact reason	excluded; geometry warning; 6 clashes; 1 protein clash; high strain Δ 23.9
Residues	A:ARG17;A:GLY225;A:HIS241;A:LEU188;A:LEU226;A:LEU229;A:MET233;A:NDP302;A:PHE113;A:SER111;A:TYR191;A:TYR194;A:TYR283;A:VAL230;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	14	Native recall	0.74
Jaccard	0.70	RMSD	-
H-bond strict	3	Strict recall	0.50
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
142	3.641404637020431	-0.75337	-14.528	4	13	13	0.68	0.20	-	no	Open
83	3.9470192945637024	-0.982789	-22.255	10	16	0	0.00	0.00	-	no	Open
144	4.715145150745025	-0.933381	-18.2915	4	14	13	0.68	0.20	-	no	Open
80	4.770210435653071	-0.975689	-18.6862	10	14	0	0.00	0.00	-	no	Open
82	4.997399211883454	-1.01846	-24.5258	11	15	0	0.00	0.00	-	no	Open
81	6.320981191621314	-0.967186	-23.2328	9	15	0	0.00	0.00	-	yes	Open
145	6.52878441319093	-0.778144	-16.1407	6	15	14	0.74	0.40	-	yes	Current
143	8.336374218918701	-0.768749	-11.6224	4	14	14	0.74	0.20	-	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 -16.141kcal/mol

Ligand efficiency (LE) -0.6456kcal/mol/HA

Score / heavy atom count

Fit quality (FQ) -5.869

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

Heavy atom count 25HA

Physicochemical properties

Molecular weight 340.4Da

Lipinski: ≤ 500 Da

LogP (cLogP) 3.91

Lipinski: ≤ 5

Rotatable bonds 5

Conformational strain (MMFF94s)

Strain energy (ΔE) 11.72kcal/mol

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

Docked FF energy 58.93kcal/mol

Minimised FF energy 47.21kcal/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.

OHD_TbNat_2