Ligand profile

CHEMBL1209868

Bioactivity hit from ChEMBL on a similar protein.

Bound to: VK055_3786 — peptide deformylase

Via homolog UniProt Q9I7A8 Formula C₂₁H₃₄N₄O₅
pchembl 7.68 ~20.9 nM
Mol. weight 422.53 Da
Permeability Check
PAINS Clean

Identifiers

Database identifiers and provenance.

Ligand ID
CHEMBL1209868
UniProt (similar protein)
Q9I7A8
pchembl
7.680 (~20.9 nM)
Target protein
VK055_3786

Structure

2D representation rendered from SMILES.

Physicochemical properties

Computed with RDKit from SMILES.

Molecular weight 422.53 Da
LogP (Crippen) 2.61
H-bond donors 4
H-bond acceptors 5
TPSA 120.00 Ų
Rotatable bonds 9
Aromatic rings 1 / 1
Heavy atoms 30
Fraction sp³ C 0.57
Formula C₂₁H₃₄N₄O₅

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 120.0
  • −1 ≤ LogP ≤ 5 2.61
Lipinski's Rule of Five Pass 0 violations
  • MW ≤ 500 Da 422.5
  • LogP ≤ 5 2.61
  • H-bond donors ≤ 5 4
  • H-bond acceptors ≤ 10 5
Veber's rules Pass
  • Rotatable bonds ≤ 10 9
  • TPSA ≤ 140 Ų 120.0
PAINS Clean

No PAINS structural alerts detected.

Chemical representations

Canonical representations for cheminformatics workflows.

SMILES 
COc1ccccc1NC(=O)N[C@H](C(=O)N(CCC(C)C)CC(=O)NO)C(C)(C)C
InChI 
InChI=1S/C21H34N4O5/c1-14(2)11-12-25(13-17(26)24-29)19(27)18(21(3,4)5)23-20(28)22-15-9-7-8-10-16(15)30-6/h7-10,14,18,29H,11-13H2,1-6H3,(H,24,26)(H2,22,23,28)/t18-/m1/s1
InChIKey 
PCOPHWISLBMJQJ-GOSISDBHSA-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)