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 (-1.016 kcal/mol/HA) ✓ Good fit quality (FQ -8.66) ✓ Good H-bonds (4 bonds) ✗ High strain energy (11.9 kcal/mol) ✗ Geometry warnings ℹ SASA not computed

Score

-21.333

kcal/mol

-1.016

kcal/mol/HA

Fit Quality

-8.66

FQ (Leeson)

HAC

heavy atoms

298

LogP

3.46

cLogP

Strain ΔE

11.9 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 11.9 kcal/mol

Interaction summary

Collapsible panels

H-bonds 4 Hydrophobic 16 π–π 1 Clashes 6 Severe clashes 1

Final rank	4.484373339867986	Score	-21.333
Inter norm	-1.09332	Intra norm	0.0774665
Top1000	no	Excluded	yes
Contacts	14	H-bonds	4
Artifact reason	excluded; geometry warning; 8 clashes; 1 protein clash; moderate strain Δ 16.8
Residues	A:ALA10;A:ASP22;A:GLY21;A:ILE61;A:ILE8;A:LEU23;A:NAP201;A:PHE35;A:PRO62;A:SER60;A:THR57;A:TYR122;A:VAL116;A:VAL9

Protein summary

200 residues

Protein target	T02	Atoms	3128
Residues	200	Chains	2
Residue summary	LYS:374; LEU:361; GLU:240; VAL:224; ARG:192; PHE:180; ILE:171; PRO:168; ASN:140; SER:132; TYR:126; GLN:119; ASP:108; MET:102; THR:98; GLY:91

Native ligand reference

★ reference

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

Name	5SD8	Contacts	21
Pose	Open native pose	H-bonds	5
IFP residues	A:ALA10; A:ASN65; A:ASP22; A:GLN36; A:GLU31; A:GLY117; A:GLY21; A:ILE61; A:ILE8; A:LEU23; A:LEU68; A:NAP201; A:PHE32; A:PHE35; A:PRO62; A:SER60; A:THR137; A:THR57; A:TYR122; A:VAL116; A:VAL9
Current overlap	14	Native recall	0.67
Jaccard	0.67	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

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
2478	3.213628442979987	-1.15172	-25.1427	2	15	15	0.71	0.20	-	no	Open
1473	4.27997042947577	-1.0709	-16.3339	7	16	0	0.00	0.00	-	no	Open
2481	4.484373339867986	-1.09332	-21.333	4	14	14	0.67	0.00	-	yes	Current
1471	5.745309613320205	-1.3855	-28.0152	7	15	0	0.00	0.00	-	yes	Open
2479	6.301372966007559	-1.07032	-26.8029	4	14	14	0.67	0.00	-	yes	Open
2480	7.692913435997724	-1.08236	-18.5653	5	15	11	0.52	0.20	-	yes	Open
1474	8.841111409484908	-1.15102	-19.024	5	9	0	0.00	0.00	-	yes	Open
1472	10.745281800144463	-1.06942	-23.691	6	9	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 -21.333kcal/mol

Ligand efficiency (LE) -1.0159kcal/mol/HA

Score / heavy atom count

Fit quality (FQ) -8.665

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

Heavy atom count 21HA

Physicochemical properties

Molecular weight 298.4Da

Lipinski: ≤ 500 Da

LogP (cLogP) 3.46

Lipinski: ≤ 5

Rotatable bonds 3

Conformational strain (MMFF94s)

Strain energy (ΔE) 11.94kcal/mol

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

Docked FF energy 39.21kcal/mol

Minimised FF energy 27.27kcal/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.

Z49890534