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
Reject
Multiple quality flags — this pose should be deprioritised or discarded.
✓ Excellent LE (-0.725 kcal/mol/HA)
✓ Good fit quality (FQ -7.31)
✗ Very high strain energy (42.5 kcal/mol)
✗ Geometry warnings
✗ Protein contact clashes
ℹ SASA not computed
Score
-25.367
kcal/mol
LE
-0.725
kcal/mol/HA
Fit Quality
-7.31
FQ (Leeson)
HAC
35
heavy atoms
MW
474
Da
LogP
1.03
cLogP
Overall: Promising but geometrically suspicious
Binding evidence: strong
Native-like contacts: strong
Ligand efficiency: excellent
Geometry reliability: low
Reason: geometry warning, clashes, protein contact clashes, strain 42.5 kcal/mol
Interaction summary
Collapsible panels
H-bonds 2
Hydrophobic 24
π–π 2
Clashes 6
Severe clashes 0
| Final rank | 6.435097382084817 | Score | -25.367 |
|---|---|---|---|
| Inter norm | -0.76336 | Intra norm | 0.0385888 |
| Top1000 | no | Excluded | no |
| Contacts | 18 | H-bonds | 2 |
| Artifact reason | geometry warning; 17 clashes; 6 protein contact clashes; high strain Δ 41.8 | ||
| Residues | A:ALA10;A:ARG29;A:ASP22;A:GLU31;A:ILE61;A:ILE8;A:LEU23;A:LEU28;A:NAP201;A:PHE32;A:PHE35;A:PRO27;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 | 15 | Native recall | 0.71 |
| Jaccard | 0.62 | RMSD | - |
| H-bond strict | 1 | Strict recall | 0.20 |
| 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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 362 | 6.051947950059093 | -0.725491 | -24.7876 | 3 | 19 | 0 | 0.00 | 0.00 | - | no | Open |
| 564 | 6.435097382084817 | -0.76336 | -25.367 | 2 | 18 | 15 | 0.71 | 0.40 | - | no | Current |
| 562 | 6.622736186688672 | -0.724749 | -25.7739 | 2 | 20 | 16 | 0.76 | 0.20 | - | no | Open |
| 433 | 6.929139539328095 | -0.831483 | -32.4761 | 2 | 19 | 0 | 0.00 | 0.00 | - | no | Open |
| 360 | 7.081412667625094 | -0.792379 | -30.8426 | 1 | 18 | 0 | 0.00 | 0.00 | - | no | Open |
| 432 | 7.6897862423845496 | -0.666396 | -18.4122 | 0 | 19 | 0 | 0.00 | 0.00 | - | no | Open |
| 563 | 7.724099824193679 | -0.651589 | -24.4701 | 2 | 15 | 14 | 0.67 | 0.20 | - | yes | Open |
| 434 | 7.864725185190762 | -0.79809 | -18.4317 | 2 | 20 | 0 | 0.00 | 0.00 | - | yes | Open |
| 431 | 8.71285521030407 | -0.754055 | -28.4143 | 3 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 565 | 10.179313852503258 | -0.718414 | -28.9632 | 2 | 19 | 16 | 0.76 | 0.20 | - | yes | Open |
| 430 | 10.606329162344084 | -0.804457 | -25.0823 | 2 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 361 | 10.634335700671578 | -0.604498 | -24.2566 | 2 | 12 | 0 | 0.00 | 0.00 | - | yes | Open |
| 363 | 11.3447361950399 | -0.648163 | -29.5202 | 2 | 12 | 0 | 0.00 | 0.00 | - | yes | Open |
| 435 | 12.16063322607444 | -0.832458 | -26.8363 | 3 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
Molecular metrics
FreeSASA-based burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
Scoring & efficiency
Docking score
-25.367kcal/mol
Ligand efficiency (LE)
-0.7248kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-7.310
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
35HA
Physicochemical properties
Molecular weight
473.6Da
Lipinski: ≤ 500 Da
LogP (cLogP)
1.03
Lipinski: ≤ 5
Rotatable bonds
5
Conformational strain (MMFF94s)
Strain energy (ΔE)
42.50kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
3.19kcal/mol
Minimised FF energy
-39.31kcal/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.