Ligand profile

ZINC9783296

Virtual-screening candidate from ZINC.

Bound to: VK055_3078 — isocitrate lyase

Via homolog UniProt P9WKK7 Formula C₂₆H₂₅F₂N₃O₄
Tanimoto 0.73
Mol. weight 481.50 Da
Permeability High
PAINS Clean

Identifiers

Database identifiers and provenance.

Ligand ID
ZINC9783296
UniProt (similar protein)
P9WKK7
Tanimoto
0.727
Target protein
VK055_3078

Structure

2D representation rendered from SMILES.

Physicochemical properties

Computed with RDKit from SMILES.

Molecular weight 481.50 Da
LogP (Crippen) 3.59
H-bond donors 1
H-bond acceptors 5
TPSA 82.85 Ų
Rotatable bonds 6
Aromatic rings 3 / 5
Heavy atoms 35
Fraction sp³ C 0.35
Formula C₂₆H₂₅F₂N₃O₄

Drug-likeness

Descriptor-based ADME screening flags from SMILES. These are not experimental toxicity results.

Permeability proxy High

Estimated from TPSA and LogP only: TPSA ≤ 90 Ų and −1 ≤ LogP ≤ 5 are treated as a favorable small-molecule permeability screen.

  • TPSA ≤ 90 Ų 82.8
  • −1 ≤ LogP ≤ 5 3.59
Lipinski's Rule of Five Pass 0 violations
  • MW ≤ 500 Da 481.5
  • LogP ≤ 5 3.59
  • H-bond donors ≤ 5 1
  • H-bond acceptors ≤ 10 5
Veber's rules Pass
  • Rotatable bonds ≤ 10 6
  • TPSA ≤ 140 Ų 82.8
PAINS Clean

No PAINS structural alerts detected.

Chemical representations

Canonical representations for cheminformatics workflows.

SMILES 
O=C(O)c1cn(C2CC2)c2cc(N3CCN(C(=O)CCc4ccccc4F)CC3)c(F)cc2c1=O
InChI 
InChI=1S/C26H25F2N3O4/c27-20-4-2-1-3-16(20)5-8-24(32)30-11-9-29(10-12-30)23-14-22-18(13-21(23)28)25(33)19(26(34)35)15-31(22)17-6-7-17/h1-4,13-15,17H,5-12H2,(H,34,35)
InChIKey 
LNDTUFSCOKZIPV-UHFFFAOYSA-N

Provenance

Annotation context from LigQ_2, the internal Target step that collects PDB, ChEMBL, and ZINC ligand evidence.

Method
LigQ nearest_k
Query
CHEMBL1818381
Homolog
P9WKK7

External resources

Open this ligand in third-party databases and cheminformatics tools.

Other ligands for this protein

Quick navigation to other ligands bound to VK055_3078.

PDB 9

Ligands co-crystallized with this protein (structural evidence).

Ligand PDB entry

ChEMBL 7

Compounds with measured inhibitory activity on this target (higher pchembl = more potent).

Compound Potency (pchembl)

ZINC 49

Virtual screening candidates selected by structural similarity to known actives (Tanimoto ≥ 0.5).

Compound Similarity (Tanimoto)