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 (-0.539 kcal/mol/HA)
✓ Good fit quality (FQ -5.44)
✗ Very high strain energy (33.9 kcal/mol)
✗ Geometry warnings
✗ Protein contact clashes
ℹ SASA not computed
Score
-18.878
kcal/mol
LE
-0.539
kcal/mol/HA
Fit Quality
-5.44
FQ (Leeson)
HAC
35
heavy atoms
MW
475
Da
LogP
1.53
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 33.9 kcal/mol
Interaction summary
Collapsible panels
H-bonds 1
Hydrophobic 24
π–π 1
Clashes 9
Severe clashes 0
| Final rank | 54.960284209602236 | Score | -18.8776 |
|---|---|---|---|
| Inter norm | -0.604768 | Intra norm | 0.0654092 |
| Top1000 | no | Excluded | no |
| Contacts | 17 | H-bonds | 1 |
| Artifact reason | geometry warning; 13 clashes; 9 protein contact clashes | ||
| Residues | A:ALA10;A:ASN65;A:ASP22;A:GLU31;A:GLY21;A:ILE61;A:ILE8;A:LEU23;A:LEU28;A:NAP201;A:PHE32;A:PHE35;A:PRO62;A:SER60;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 | 16 | Native recall | 0.76 |
| Jaccard | 0.73 | 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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1662 | 4.350384725323136 | -0.738174 | -24.6084 | 1 | 17 | 17 | 0.81 | 0.00 | - | no | Open |
| 1667 | 4.844045954796032 | -0.700366 | -19.294 | 1 | 19 | 17 | 0.81 | 0.00 | - | no | Open |
| 1668 | 4.859384716406591 | -0.640292 | -21.3225 | 1 | 16 | 13 | 0.62 | 0.20 | - | no | Open |
| 1671 | 5.605918802242034 | -0.60581 | -20.7046 | 1 | 20 | 17 | 0.81 | 0.20 | - | no | Open |
| 1661 | 7.763985129702788 | -0.608674 | -17.1888 | 1 | 21 | 18 | 0.86 | 0.00 | - | no | Open |
| 1670 | 54.960284209602236 | -0.604768 | -18.8776 | 1 | 17 | 16 | 0.76 | 0.00 | - | no | Current |
| 1664 | 7.8779855370982705 | -0.67146 | -21.2107 | 1 | 17 | 17 | 0.81 | 0.00 | - | yes | Open |
| 1672 | 54.55062236852084 | -0.585962 | -19.8579 | 1 | 17 | 17 | 0.81 | 0.00 | - | yes | Open |
| 1669 | 55.71954481361269 | -0.595588 | -21.8651 | 1 | 17 | 17 | 0.81 | 0.00 | - | yes | Open |
| 1666 | 56.025489933285584 | -0.713076 | -18.0676 | 1 | 21 | 18 | 0.86 | 0.00 | - | yes | Open |
| 1665 | 57.1778127653425 | -0.559432 | -16.0845 | 2 | 21 | 18 | 0.86 | 0.00 | - | yes | Open |
| 1663 | 58.99218056414671 | -0.623854 | -20.1822 | 1 | 22 | 19 | 0.90 | 0.20 | - | yes | Open |
Molecular metrics
FreeSASA-based burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
Scoring & efficiency
Docking score
-18.878kcal/mol
Ligand efficiency (LE)
-0.5394kcal/mol/HA
Score / heavy atom count
Fit quality (FQ)
-5.440
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count
35HA
Physicochemical properties
Molecular weight
474.7Da
Lipinski: ≤ 500 Da
LogP (cLogP)
1.53
Lipinski: ≤ 5
Rotatable bonds
6
Conformational strain (MMFF94s)
Strain energy (ΔE)
33.86kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy
255.06kcal/mol
Minimised FF energy
221.21kcal/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.