FAIRMol

Z88883573

Pose ID 1196 Compound 196 Pose 518

DB SELECTIONDocking pose analysis is being read from this database.
Compound detail Protein structures Back to compounds
Molecular metrics status: done
RDKit SASA-based burial metrics are cached.
SASA cached
T02
Human DHFR Human
Ligand Z88883573
PDB5SD8↗

3D complex viewer

Strict H-bonds Permissive H-bonds
Viewer legend
Protein receptor
Pocket residues
Cofactor context
Docked ligand
Overall assessment
Weak SASA cached
Weak or marginal quality
Binding strong Geometry high Native strong SASA done
Strain ΔE
17.1 kcal/mol
Protein clashes
1
Internal clashes
1
Native overlap
contact recall 0.81, Jaccard 0.81, H-bond role recall 0.20
Burial
91%
Hydrophobic fit
76%
Reason: no major geometry red flags detected
1 protein-contact clashes
Molecular report
Full metrics ↗
Weak Marginal quality. Consider only alongside better-scoring alternatives.
✓ Excellent LE (-1.130 kcal/mol/HA) ✓ Good fit quality (FQ -9.81) ✓ Good H-bonds (3 bonds) ✓ Deep burial (91% SASA buried) ✓ Lipophilic contacts well-matched (76%) ✗ Moderate strain (17.1 kcal/mol) ✗ Geometry warnings ✗ Minor protein-contact clashes (2) ✗ Many internal clashes (11)
Score
-24.859
kcal/mol
LE
-1.130
kcal/mol/HA
Fit Quality
-9.81
FQ (Leeson)
HAC
22
heavy atoms
MW
316
Da
LogP
2.68
cLogP
Strain ΔE
17.1 kcal/mol
SASA buried
91%
Lipo contact
76% BSA apolar/total
SASA unbound
548 Ų
Apolar buried
376 Ų

Interaction summary

HB 3 HY 23 PI 1 CLASH 1
Final rank0.424Score-24.859
Inter norm-1.167Intra norm0.037
Top1000noExcludedno
Contacts17H-bonds3
Artifact reasongeometry warning; 11 clashes; 2 protein contact clashes; 1 cofactor-context clash
Residues
ALA10 ASP22 GLU31 GLY21 ILE61 ILE8 LEU23 LEU68 NAP201 PHE35 PRO62 SER60 THR137 THR57 TYR122 VAL116 VAL9

Protein summary

200 residues
Protein targetT02Atoms3128
Residues200Chains2
Residue summaryLYS: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

Receptor context

1 kept / 0 excluded
Receptor context filtering: interactions and SASA are computed against protein atoms plus allowed cofactors/ions. Native ligand-like HETATM partners are excluded from scoring.
Kept context 1 Excluded HETATM 0
Kept cofactors / ions
A:NAP201

Native ligand reference

★ reference
Interaction fingerprint calculated directly from the uploaded native ligand without docking. Current H-bond mode: strict.
Name5SD8Contacts21
PoseOpen native poseHB0
IFP residues
ALA10 ASN65 ASP22 GLN36 GLU31 GLY117 GLY21 ILE61 ILE8 LEU23 LEU68 NAP201 PHE32 PHE35 PRO62 SER60 THR137 THR57 TYR122 VAL116 VAL9
Current overlap17Native recall0.81
Jaccard0.81RMSD-
HB strict1Strict recall0.20
HB same residue+role1HB role recall0.20
HB same residue1HB residue recall0.20

HB · H-bonds
Mode: strict. Count shows atom-level H-bonds; unique residues in summary: 0.

PI · π–π interactions
Native π–π recall is disabled because no explicit native π–π reference was stored.

HY · Hydrophobic contacts

CLASH · Clashes

All stored poses for this docking hit

PoseFinal rankInter normScoreHBCTCT overlapCT recallHB role rec.RMSDExcluded
518 0.424401773597169 -1.16746 -24.8593 3 17 17 0.81 0.20 - no Current
527 1.4934921433907855 -1.2489 -27.2354 3 17 17 0.81 0.20 - no Open
476 2.4118750595625427 -1.1106 -22.9714 5 14 0 0.00 0.00 - no Open

Molecular metrics

RDKit SASA burial, strain energy (MMFF94s), ligand efficiency and fit quality for this docking pose.
✓ Metrics available

Scoring & efficiency
Docking score -24.859kcal/mol
Ligand efficiency (LE) -1.1300kcal/mol/HA
Score / heavy atom count
Fit quality (FQ) -9.810
LE / (0.072 + 0.95/HAC) — Leeson & Springthorpe
Heavy atom count 22HA

Physicochemical properties
Molecular weight 316.4Da
Lipinski: ≤ 500 Da
LogP (cLogP) 2.68
Lipinski: ≤ 5
Rotatable bonds 3

Conformational strain (MMFF94s)
Strain energy (ΔE) 17.05kcal/mol
< 5 good · 5–10 marginal · > 10 problematic
Docked FF energy -35.65kcal/mol
Minimised FF energy -52.70kcal/mol

SASA & burial

✓ computed
SASA (unbound) 548.5Ų
Total solvent-accessible surface area of free ligand
BSA total 497.0Ų
Buried surface area upon binding
BSA apolar 375.5Ų
Hydrophobic contacts buried
BSA polar 121.5Ų
Polar contacts buried
Fraction buried 90.6%
> 60 % indicates good pocket engagement
Lipophilic contact ratio 75.5%
BSA apolar / BSA total — high = hydrophobic driver
Δ Non-polar SASA -1485.2Ų
SASA_nonpolar(complex) − SASA_nonpolar(receptor) − SASA_nonpolar(ligand free). Negative = non-polar surface buried upon binding. Requires full polarity-decomposed SASA computation.
Receptor non-polar SASA 1677.9Ų
Non-polar SASA of receptor alone (VdW proxy, nonpolar atoms only)
Complex non-polar SASA 613.4Ų
Non-polar SASA of full complex (VdW proxy, nonpolar atoms only)