Ligand profile

CHEMBL348314

Bioactivity hit from ChEMBL on a similar protein.

Bound to: VK055_3786 — peptide deformylase

Via homolog UniProt Q9JN24 Formula C₂₇H₄₀FN₃O₅
pchembl 8.70 ~2.0 nM
Mol. weight 505.63 Da
Permeability Check
PAINS Clean

Identifiers

Database identifiers and provenance.

Ligand ID
CHEMBL348314
UniProt (similar protein)
Q9JN24
pchembl
8.700 (~2.0 nM)
Target protein
VK055_3786

Structure

2D representation rendered from SMILES.

Physicochemical properties

Computed with RDKit from SMILES.

Molecular weight 505.63 Da
LogP (Crippen) 3.54
H-bond donors 3
H-bond acceptors 6
TPSA 110.18 Ų
Rotatable bonds 11
Aromatic rings 1 / 3
Heavy atoms 36
Fraction sp³ C 0.67
Formula C₂₇H₄₀FN₃O₅

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 110.2
  • −1 ≤ LogP ≤ 5 3.54
Lipinski's Rule of Five Pass 1 violation
  • MW ≤ 500 Da 505.6
  • LogP ≤ 5 3.54
  • H-bond donors ≤ 5 3
  • H-bond acceptors ≤ 10 6
Veber's rules Fail
  • Rotatable bonds ≤ 10 11
  • TPSA ≤ 140 Ų 110.2
PAINS Clean

No PAINS structural alerts detected.

Chemical representations

Canonical representations for cheminformatics workflows.

SMILES 
CC(C)(C)[C@H](NC(=O)[C@H](CC1CCCC1)CN(O)C=O)C(=O)c1ccc(N2CCC[C@H]2CO)c(F)c1
InChI 
InChI=1S/C27H40FN3O5/c1-27(2,3)25(29-26(35)20(15-30(36)17-33)13-18-7-4-5-8-18)24(34)19-10-11-23(22(28)14-19)31-12-6-9-21(31)16-32/h10-11,14,17-18,20-21,25,32,36H,4-9,12-13,15-16H2,1-3H3,(H,29,35)/t20-,21+,25-/m1/s1
InChIKey 
KPIGKYVXZOAYLT-TYBLODHISA-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
PF01327

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_3786.

PDB 12

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

Ligand PDB entry

ChEMBL 99

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)