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 (-0.904 kcal/mol/HA)
✓ Good fit quality (FQ -8.63)
✓ Good H-bonds (4 bonds)
✗ Very high strain energy (33.2 kcal/mol)
✗ Geometry warnings
✗ Protein contact clashes
ℹ SASA not computed
Score
-26.216
kcal/mol
LE
-0.904
kcal/mol/HA
Fit Quality
-8.63
FQ (Leeson)
HAC
29
heavy atoms
MW
430
Da
LogP
2.54
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 33.2 kcal/mol
Interaction summary
Collapsible panels
H-bonds 4
Hydrophobic 24
π–π 2
Clashes 7
Severe clashes 0
| Final rank | 4.865431678161478 | Score | -26.216 |
|---|---|---|---|
| Inter norm | -0.89763 | Intra norm | -0.00637112 |
| Top1000 | no | Excluded | no |
| Contacts | 18 | H-bonds | 4 |
| Artifact reason | geometry warning; 10 clashes; 7 protein contact clashes; high strain Δ 35.2 | ||
| Residues | A:ALA32;A:ARG48;A:ASP52;A:ILE45;A:LEU94;A:MET53;A:NDP301;A:PHE56;A:PRO88;A:SER86;A:THR83;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 | 15 | Native recall | 0.75 |
| Jaccard | 0.65 | RMSD | - |
| H-bond strict | 1 | Strict recall | 0.14 |
| 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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 697 | 4.111869370838596 | -0.783239 | -21.0506 | 2 | 14 | 0 | 0.00 | 0.00 | - | no | Open |
| 2162 | 4.160367745988031 | -0.900131 | -25.1198 | 3 | 19 | 0 | 0.00 | 0.00 | - | no | Open |
| 888 | 4.217108361780335 | -0.946723 | -27.6766 | 8 | 18 | 0 | 0.00 | 0.00 | - | no | Open |
| 2237 | 4.865431678161478 | -0.89763 | -26.216 | 4 | 18 | 15 | 0.75 | 0.20 | - | no | Current |
| 1126 | 4.8686146851245455 | -0.838861 | -23.2646 | 5 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 905 | 5.175923461383732 | -1.04284 | -29.8066 | 8 | 15 | 0 | 0.00 | 0.00 | - | no | Open |
| 1456 | 5.223536796494479 | -0.735896 | -20.1767 | 6 | 15 | 0 | 0.00 | 0.00 | - | no | Open |
| 2892 | 5.22909899959636 | -0.662423 | -17.0424 | 4 | 19 | 0 | 0.00 | 0.00 | - | no | Open |
| 2890 | 5.455210245567124 | -0.988533 | -28.1895 | 8 | 17 | 0 | 0.00 | 0.00 | - | no | Open |
| 694 | 5.786245041902012 | -0.880811 | -22.0131 | 3 | 16 | 0 | 0.00 | 0.00 | - | no | Open |
| 1452 | 6.013139980281577 | -0.634418 | -19.2177 | 5 | 14 | 0 | 0.00 | 0.00 | - | no | Open |
| 3016 | 6.251017197186693 | -0.768463 | -22.7 | 8 | 15 | 0 | 0.00 | 0.00 | - | no | Open |
| 1659 | 6.2751756362903715 | -0.541586 | -13.9837 | 5 | 12 | 0 | 0.00 | 0.00 | - | no | Open |
| 3018 | 6.7448423629921095 | -0.707602 | -20.9845 | 5 | 15 | 0 | 0.00 | 0.00 | - | no | Open |
| 1120 | 7.425725553546979 | -0.766774 | -17.9539 | 11 | 16 | 0 | 0.00 | 0.00 | - | no | Open |
| 904 | 5.33342663415995 | -1.13056 | -32.0626 | 7 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1451 | 5.372642978855648 | -0.816997 | -22.4353 | 4 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 696 | 5.631307573983764 | -0.891961 | -22.9586 | 1 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2240 | 5.769141070471637 | -0.964791 | -27.7965 | 5 | 14 | 9 | 0.45 | 0.40 | - | yes | Open |
| 691 | 5.874523547019165 | -0.848711 | -22.8084 | 1 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2891 | 6.0803235992972775 | -0.867501 | -24.3801 | 9 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 693 | 6.381858579800904 | -0.797707 | -19.6108 | 1 | 17 | 0 | 0.00 | 0.00 | - | yes | Open |
| 890 | 6.6310907873120595 | -1.0321 | -30.4483 | 11 | 21 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2889 | 6.632517283437798 | -0.909325 | -26.346 | 7 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1660 | 6.654720537576164 | -0.679352 | -19.0459 | 9 | 11 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1124 | 6.680622041373457 | -0.980479 | -28.998 | 6 | 18 | 0 | 0.00 | 0.00 | - | yes | Open |
| 886 | 6.990004823159294 | -0.931537 | -27.7624 | 10 | 20 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2893 | 7.028890759874217 | -0.89602 | -24.5623 | 3 | 20 | 0 | 0.00 | 0.00 | - | yes | Open |
| 3017 | 7.282527151918403 | -0.694543 | -18.6488 | 5 | 12 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1455 | 7.28857938202843 | -0.705212 | -21.3947 | 6 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1661 | 7.393584592531386 | -0.536629 | -17.7769 | 7 | 11 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1122 | 7.415192842704657 | -0.953078 | -26.9353 | 5 | 17 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1121 | 7.433688193272738 | -0.851974 | -25.3205 | 6 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 692 | 7.663184594704354 | -0.790924 | -23.3276 | 2 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2894 | 7.770109274167497 | -0.836537 | -23.1271 | 9 | 18 | 0 | 0.00 | 0.00 | - | yes | Open |
| 887 | 7.791360287068626 | -0.881316 | -23.8612 | 9 | 21 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1123 | 7.834059104489801 | -0.756434 | -17.2618 | 6 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1657 | 7.871755774865798 | -0.78462 | -22.2614 | 10 | 10 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2238 | 8.214714916097323 | -1.05701 | -30.407 | 7 | 17 | 13 | 0.65 | 0.80 | - | yes | Open |
| 906 | 8.296488181721106 | -1.03268 | -27.9931 | 7 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1658 | 8.391396300191012 | -0.623777 | -18.4307 | 7 | 11 | 0 | 0.00 | 0.00 | - | yes | Open |
| 695 | 8.435239028514085 | -0.78252 | -23.2915 | 3 | 13 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1457 | 8.749866929549075 | -0.809909 | -22.2852 | 6 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2895 | 8.953466088372053 | -0.772983 | -17.3909 | 4 | 14 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1125 | 9.166248154570393 | -0.710372 | -19.9427 | 6 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2239 | 9.76977400798912 | -0.885729 | -23.2838 | 5 | 13 | 13 | 0.65 | 0.20 | - | yes | Open |
| 3015 | 9.97558583116345 | -0.888141 | -25.7806 | 6 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 891 | 10.356900298932489 | -0.916863 | -24.7112 | 12 | 16 | 0 | 0.00 | 0.00 | - | yes | Open |
| 889 | 10.75346303605972 | -0.87622 | -22.4413 | 11 | 19 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1454 | 10.828262197522555 | -0.812525 | -22.2931 | 5 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 892 | 10.944842238652809 | -1.03923 | -24.512 | 13 | 15 | 0 | 0.00 | 0.00 | - | yes | Open |
| 1453 | 12.656895850984805 | -0.79869 | -24.3006 | 6 | 17 | 0 | 0.00 | 0.00 | - | yes | Open |
| 2163 | 13.045205356730103 | -0.983933 | -23.2803 | 7 | 17 | 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
-26.216kcal/mol
Ligand efficiency (LE)
-0.9040kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-8.629
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
29HA
Physicochemical properties
Molecular weight
429.5Da
Lipinski: ≤ 500 Da
LogP (cLogP)
2.54
Lipinski: ≤ 5
Rotatable bonds
7
Conformational strain (MMFF94s)
Strain energy (ΔE)
33.24kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
7.36kcal/mol
Minimised FF energy
-25.88kcal/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.