Docking pose detail

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 (-0.573 kcal/mol/HA) ✓ Good fit quality (FQ -4.89) ✗ High strain energy (15.5 kcal/mol) ✗ Geometry warnings ✗ Protein contact clashes ℹ SASA not computed

Score

-12.037

kcal/mol

-0.573

kcal/mol/HA

Fit Quality

-4.89

FQ (Leeson)

HAC

heavy atoms

283

LogP

2.99

cLogP

Strain ΔE

15.5 kcal/mol

SASA buried

computing…

Interaction summary

Collapsible panels

H-bonds 2 Hydrophobic 21 π–π 4 Clashes 4 Severe clashes 0

Final rank	2.5044547755163142	Score	-12.0373
Inter norm	-0.930363	Intra norm	0.357159
Top1000	no	Excluded	no
Contacts	9	H-bonds	2
Artifact reason	geometry warning; 8 clashes; 4 protein contact clashes; moderate strain Δ 16.1
Residues	A:ARG17;A:HIS241;A:LEU188;A:LEU226;A:LEU229;A:NDP302;A:PHE113;A:TYR191;A:TYR194

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	9	Native recall	0.47
Jaccard	0.47	RMSD	-
H-bond strict	1	Strict recall	0.17
H-bond same residue+role	1	Role recall	0.20
H-bond same residue	1	Residue recall	0.20

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
1942	2.5044547755163142	-0.930363	-12.0373	2	9	9	0.47	0.20	-	no	Current
1944	2.787746423550288	-1.16836	-18.7263	1	11	11	0.58	0.20	-	no	Open
1945	5.057546949496257	-0.772865	-12.9076	6	11	11	0.58	0.40	-	no	Open
1941	5.079756412899772	-0.946087	-17.714	3	10	10	0.53	0.40	-	yes	Open
1943	5.403288061381188	-0.944832	-17.3321	1	11	11	0.58	0.00	-	yes	Open
1946	5.4847065029150865	-0.895442	-12.4889	1	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 -12.037kcal/mol

Ligand efficiency (LE) -0.5732kcal/mol/HA

Score / heavy atom count

Fit quality (FQ) -4.889

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

Heavy atom count 21HA

Physicochemical properties

Molecular weight 283.3Da

Lipinski: ≤ 500 Da

LogP (cLogP) 2.99

Lipinski: ≤ 5

Rotatable bonds 4

Conformational strain (MMFF94s)

Strain energy (ΔE) 15.48kcal/mol

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

Docked FF energy 80.35kcal/mol

Minimised FF energy 64.87kcal/mol

SASA & burial (FreeSASA)

not yet run

SASA has not been computed yet for this pose. It will be calculated automatically the next time this pose is loaded if a receptor PDB path is stored.

Z56792679