Ligand profile

CHEMBL605877

Bioactivity hit from ChEMBL on a similar protein.

Bound to: VK055_4939 — cytidine deaminase

Via homolog UniProt P56389 Formula C₁₀H₁₆N₂O₆
pchembl 6.40 ~398.1 nM
Mol. weight 260.25 Da
Permeability Check
PAINS Clean

Identifiers

Database identifiers and provenance.

Ligand ID
CHEMBL605877
UniProt (similar protein)
P56389
pchembl
6.400 (~398.1 nM)
Target protein
VK055_4939

Structure

2D representation rendered from SMILES.

Physicochemical properties

Computed with RDKit from SMILES.

Molecular weight 260.25 Da
LogP (Crippen) -2.67
H-bond donors 5
H-bond acceptors 6
TPSA 122.49 Ų
Rotatable bonds 3
Aromatic rings 0 / 2
Heavy atoms 18
Fraction sp³ C 0.70
Formula C₁₀H₁₆N₂O₆

Drug-likeness

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

Permeability proxy Check

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 122.5
  • −1 ≤ LogP ≤ 5 -2.67
Lipinski's Rule of Five Pass 0 violations
  • MW ≤ 500 Da 260.2
  • LogP ≤ 5 -2.67
  • H-bond donors ≤ 5 5
  • H-bond acceptors ≤ 10 6
Veber's rules Pass
  • Rotatable bonds ≤ 10 3
  • TPSA ≤ 140 Ų 122.5
PAINS Clean

No PAINS structural alerts detected.

Chemical representations

Canonical representations for cheminformatics workflows.

SMILES 
O=C1NC(CO)C=CN1C1O[C@H](CO)[C@@H](O)[C@H]1O
InChI 
InChI=1S/C10H16N2O6/c13-3-5-1-2-12(10(17)11-5)9-8(16)7(15)6(4-14)18-9/h1-2,5-9,13-16H,3-4H2,(H,11,17)/t5?,6-,7-,8-,9?/m1/s1
InChIKey 
JUJHLFFBRZXSTL-WIUUEXBZSA-N

Provenance

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

Method
LigQ nearest_k
Source
ChEMBL
Binding sites
PF00383

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_4939.

PDB 9

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

Ligand PDB entry

ChEMBL 15

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

Compound Potency (pchembl)

ZINC 50

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

Compound Similarity (Tanimoto)