Ligand profile

CHEMBL612042

Bioactivity hit from ChEMBL on a similar protein.

Bound to: VK055_5117 — 2,3-dihydroxybenzoate-AMP ligase

Via homolog UniProt P71716 Formula C₃₅H₅₄N₁₀O₈S
pchembl 8.29 ~5.1 nM
Mol. weight 774.95 Da
Permeability Check
PAINS Clean

Identifiers

Database identifiers and provenance.

Ligand ID
CHEMBL612042
UniProt (similar protein)
P71716
pchembl
8.290 (~5.1 nM)
Target protein
VK055_5117

Structure

2D representation rendered from SMILES.

Physicochemical properties

Computed with RDKit from SMILES.

Molecular weight 774.95 Da
LogP (Crippen) 3.04
H-bond donors 5
H-bond acceptors 17
TPSA 245.96 Ų
Rotatable bonds 19
Aromatic rings 4 / 5
Heavy atoms 54
Fraction sp³ C 0.60
Formula C₃₅H₅₄N₁₀O₈S

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 246.0
  • −1 ≤ LogP ≤ 5 3.04
Lipinski's Rule of Five Fail 2 violations
  • MW ≤ 500 Da 774.9
  • LogP ≤ 5 3.04
  • H-bond donors ≤ 5 5
  • H-bond acceptors ≤ 10 17
Veber's rules Fail
  • Rotatable bonds ≤ 10 19
  • TPSA ≤ 140 Ų 246.0
PAINS Clean

No PAINS structural alerts detected.

Chemical representations

Canonical representations for cheminformatics workflows.

SMILES 
CCCCCCCCCCc1cn(-c2nc(N)c3ncn([C@@H]4O[C@H](COS(=O)(=O)NC(=O)c5ccccc5O)[C@@H](O)[C@H]4O)c3n2)nn1.CCN(CC)CC
InChI 
InChI=1S/C29H39N9O8S.C6H15N/c1-2-3-4-5-6-7-8-9-12-18-15-38(36-34-18)29-32-25(30)22-26(33-29)37(17-31-22)28-24(41)23(40)21(46-28)16-45-47(43,44)35-27(42)19-13-10-11-14-20(19)39;1-4-7(5-2)6-3/h10-11,13-15,17,21,23-24,28,39-41H,2-9,12,16H2,1H3,(H,35,42)(H2,30,32,33);4-6H2,1-3H3/t21-,23-,24-,28-;/m1./s1
InChIKey 
AGIUFMOHLNMTSZ-OMIYRVOGSA-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
Curation
pdb_similarity_tanimoto
Binding sites
PF00501' 'PF13193

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_5117.

PDB 7

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

Ligand PDB entry

ChEMBL 81

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)