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.
Molecular report
Weak
Marginal quality. Consider only alongside better-scoring alternatives.
✓ Excellent LE (-0.827 kcal/mol/HA)
✓ Good fit quality (FQ -8.28)
✓ Strong H-bond network (7 bonds)
✗ Very high strain energy (21.8 kcal/mol)
✗ Geometry warnings
ℹ SASA not computed
Score
-28.129
kcal/mol
LE
-0.827
kcal/mol/HA
Fit Quality
-8.28
FQ (Leeson)
HAC
34
heavy atoms
MW
537
Da
LogP
4.90
cLogP
Overall: Promising but geometrically suspicious
Binding evidence: strong
Native-like contacts: mixed
Ligand efficiency: excellent
Geometry reliability: low
Reason: geometry warning, clashes, strain 21.8 kcal/mol
Interaction summary
Collapsible panels
H-bonds 7
Hydrophobic 24
π–π 3
Clashes 24
Severe clashes 2
| Final rank | 12.42883632615458 | Score | -28.1292 |
|---|---|---|---|
| Inter norm | -0.845742 | Intra norm | 0.0184137 |
| Top1000 | no | Excluded | yes |
| Contacts | 15 | H-bonds | 7 |
| Artifact reason | excluded; geometry warning; 14 clashes; 2 protein clashes; moderate strain Δ 18.5 | ||
| Residues | A:ALA10;A:ARG29;A:ASN65;A:GLU31;A:ILE8;A:LEU23;A:LEU28;A:NAP201;A:PHE32;A:PHE35;A:PRO27;A:TRP25;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 | 11 | Native recall | 0.52 |
| Jaccard | 0.44 | RMSD | - |
| H-bond strict | 1 | Strict recall | 0.20 |
| 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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 2930 | 4.766833510551487 | -0.786885 | -34.244 | 1 | 19 | 16 | 0.76 | 0.00 | - | no | Open |
| 2210 | 6.709449702349738 | -0.597302 | -30.3192 | 3 | 15 | 0 | 0.00 | 0.00 | - | no | Open |
| 2020 | 7.519789884190888 | -0.827611 | -32.8408 | 4 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 2207 | 5.96274016742041 | -0.615292 | -20.3678 | 5 | 14 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2928 | 6.613578747005372 | -0.684696 | -24.5744 | 2 | 18 | 16 | 0.76 | 0.00 | - | yes | Open |
| 2208 | 6.85495590158805 | -0.633197 | -20.9968 | 7 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2017 | 7.6855192388738205 | -0.729927 | -23.4857 | 1 | 17 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2929 | 7.866589587912101 | -0.729839 | -33.0668 | 3 | 18 | 13 | 0.62 | 0.00 | - | yes | Open |
| 2019 | 8.665876422895105 | -0.630636 | -28.8547 | 3 | 17 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2209 | 8.785652458923066 | -0.51302 | -27.0156 | 2 | 12 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2018 | 10.003130476906607 | -0.779491 | -21.507 | 5 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2927 | 12.42883632615458 | -0.845742 | -28.1292 | 7 | 15 | 11 | 0.52 | 0.20 | - | yes | Current |
Molecular metrics
FreeSASA-based burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
Scoring & efficiency
Docking score
-28.129kcal/mol
Ligand efficiency (LE)
-0.8273kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-8.278
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
34HA
Physicochemical properties
Molecular weight
537.5Da
Lipinski: ≤ 500 Da
LogP (cLogP)
4.90
Lipinski: ≤ 5
Rotatable bonds
6
Conformational strain (MMFF94s)
Strain energy (ΔE)
21.83kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
33.90kcal/mol
Minimised FF energy
12.07kcal/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.