Ligand profile

ZINC98088058

Virtual-screening candidate from ZINC.

Bound to: VK055_2135 — DNA base-flipping protein

Via homolog UniProt Q9UTN9 Formula C₁₀H₁₃N₃O₂
Tanimoto 0.54
Mol. weight 207.23 Da
Permeability High
PAINS Clean

Identifiers

Database identifiers and provenance.

Ligand ID
ZINC98088058
UniProt (similar protein)
Q9UTN9
Tanimoto
0.537
Target protein
VK055_2135

Structure

2D representation rendered from SMILES.

Physicochemical properties

Computed with RDKit from SMILES.

Molecular weight 207.23 Da
LogP (Crippen) 1.36
H-bond donors 1
H-bond acceptors 5
TPSA 71.42 Ų
Rotatable bonds 7
Aromatic rings 1 / 1
Heavy atoms 15
Fraction sp³ C 0.40
Formula C₁₀H₁₃N₃O₂

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 71.4
  • −1 ≤ LogP ≤ 5 1.36
Lipinski's Rule of Five Pass 0 violations
  • MW ≤ 500 Da 207.2
  • LogP ≤ 5 1.36
  • H-bond donors ≤ 5 1
  • H-bond acceptors ≤ 10 5
Veber's rules Pass
  • Rotatable bonds ≤ 10 7
  • TPSA ≤ 140 Ų 71.4
PAINS Clean

No PAINS structural alerts detected.

Chemical representations

Canonical representations for cheminformatics workflows.

SMILES 
O=NCNCCCC(=O)c1cccnc1
InChI 
InChI=1S/C10H13N3O2/c14-10(4-2-6-12-8-13-15)9-3-1-5-11-7-9/h1,3,5,7,12H,2,4,6,8H2
InChIKey 
UPAPMNCQXRTGHN-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
PBO
Homolog
Q9UTN9

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_2135.

PDB 1

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

Ligand PDB entry

ZINC 49

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

Compound Similarity (Tanimoto)