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 (-0.898 kcal/mol/HA)
✓ Good fit quality (FQ -8.66)
✗ Very high strain energy (67.1 kcal/mol)
✗ Geometry warnings
ℹ SASA not computed
Score
-26.934
kcal/mol
LE
-0.898
kcal/mol/HA
Fit Quality
-8.66
FQ (Leeson)
HAC
30
heavy atoms
MW
449
Da
LogP
2.29
cLogP
Overall: Promising but geometrically suspicious
Binding evidence: strong
Native-like contacts: strong
Ligand efficiency: excellent
Geometry reliability: low
Reason: geometry warning, clashes, strain 67.1 kcal/mol
Interaction summary
Collapsible panels
H-bonds 2
Hydrophobic 24
π–π 1
Clashes 11
Severe clashes 1
| Final rank | 9.951702061617464 | Score | -26.9345 |
|---|---|---|---|
| Inter norm | -0.790148 | Intra norm | -0.107667 |
| Top1000 | no | Excluded | yes |
| Contacts | 17 | H-bonds | 2 |
| Artifact reason | excluded; geometry warning; 11 clashes; 1 protein clash; high strain Δ 70.6 | ||
| Residues | A:ALA32;A:ARG48;A:ASP52;A:ILE45;A:MET53;A:NDP301;A:PHE56;A:PRO88;A:SER44;A:SER86;A:TRP47;A:TYR162;A:VAL156;A:VAL30;A:VAL31;A:VAL49;A:VAL87 | ||
Protein summary
225 residues
| Protein target | T03 | Atoms | 3428 |
|---|---|---|---|
| Residues | 225 | Chains | 2 |
| Residue summary | LEU:380; ARG:360; VAL:272; LYS:264; ALA:240; GLU:240; PRO:224; PHE:180; THR:154; ILE:152; SER:132; TYR:126; GLN:119; ASN:98; GLY:84; NDP:74 | ||
Native ligand reference
★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
| Name | 3CL9 | Contacts | 20 |
|---|---|---|---|
| Pose | Open native pose | H-bonds | 9 |
| IFP residues | A:ALA32; A:ARG97; A:ASP52; A:ILE45; A:LEU94; A:LYS57; A:MET53; A:NDP301; A:PHE56; A:PHE91; A:PRO88; A:SER86; A:THR180; A:THR54; A:THR83; A:TYR162; A:VAL156; A:VAL30; A:VAL31; A:VAL87 | ||
| Current overlap | 13 | Native recall | 0.65 |
| Jaccard | 0.54 | 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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 963 | 5.806087183887655 | -1.13622 | -30.3874 | 8 | 14 | 0 | 0.00 | 0.00 | - | no | Open |
| 2216 | 6.766299943630422 | -0.843984 | -27.5078 | 6 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 976 | 8.2461418839704 | -0.780105 | -22.088 | 3 | 18 | 1 | 0.05 | 0.00 | - | no | Open |
| 975 | 8.502020153798755 | -0.777878 | -22.9572 | 4 | 18 | 1 | 0.05 | 0.00 | - | no | Open |
| 2305 | 9.163447690934749 | -0.885682 | -27.6876 | 4 | 18 | 16 | 0.80 | 0.20 | - | no | Open |
| 2217 | 8.534358284311434 | -0.735563 | -20.7033 | 5 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2304 | 9.951702061617464 | -0.790148 | -26.9345 | 2 | 17 | 13 | 0.65 | 0.00 | - | yes | Current |
| 2303 | 11.200420900316685 | -0.919501 | -27.1237 | 4 | 18 | 16 | 0.80 | 0.20 | - | yes | Open |
| 962 | 12.10447535989784 | -1.022 | -26.3377 | 8 | 14 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2306 | 12.463776176085847 | -0.825808 | -22.8459 | 4 | 15 | 10 | 0.50 | 0.20 | - | yes | Open |
| 972 | 15.73848831987706 | -0.623792 | -20.0817 | 3 | 18 | 1 | 0.05 | 0.00 | - | yes | Open |
| 974 | 16.10560420492752 | -0.871094 | -20.4231 | 9 | 21 | 1 | 0.05 | 0.00 | - | yes | Open |
| 971 | 16.26580527351604 | -0.839677 | -19.7185 | 8 | 21 | 1 | 0.05 | 0.00 | - | yes | Open |
| 973 | 18.896528610652158 | -0.623324 | -18.8069 | 4 | 18 | 1 | 0.05 | 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
-26.934kcal/mol
Ligand efficiency (LE)
-0.8978kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-8.661
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
30HA
Physicochemical properties
Molecular weight
448.5Da
Lipinski: ≤ 500 Da
LogP (cLogP)
2.29
Lipinski: ≤ 5
Rotatable bonds
8
Conformational strain (MMFF94s)
Strain energy (ΔE)
67.09kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
51.55kcal/mol
Minimised FF energy
-15.54kcal/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.