Ligand profile

CHEMBL3976345

Bioactivity hit from ChEMBL on a similar protein.

Bound to: KP13_04775 — putative Na(+)/H(+) exchanger protein

Via homolog UniProt P48764 Formula C₅₈H₈₂N₈O₁₂S₂
pchembl 8.35 ~4.5 nM
Mol. weight 1147.47 Da
Permeability Check
PAINS Clean

Identifiers

Database identifiers and provenance.

Ligand ID
CHEMBL3976345
UniProt (similar protein)
P48764
pchembl
8.350 (~4.5 nM)
Target protein
KP13_04775

Structure

2D representation rendered from SMILES.

Physicochemical properties

Computed with RDKit from SMILES.

Molecular weight 1147.47 Da
LogP (Crippen) 5.45
H-bond donors 6
H-bond acceptors 14
TPSA 236.46 Ų
Rotatable bonds 33
Aromatic rings 4 / 8
Heavy atoms 80
Fraction sp³ C 0.55
Formula C₅₈H₈₂N₈O₁₂S₂

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 236.5
  • −1 ≤ LogP ≤ 5 5.45
Lipinski's Rule of Five Fail 4 violations
  • MW ≤ 500 Da 1147.5
  • LogP ≤ 5 5.45
  • H-bond donors ≤ 5 6
  • H-bond acceptors ≤ 10 14
Veber's rules Fail
  • Rotatable bonds ≤ 10 33
  • TPSA ≤ 140 Ų 236.5
PAINS Clean

No PAINS structural alerts detected.

Chemical representations

Canonical representations for cheminformatics workflows.

SMILES 
O=C(NCCCCNC(=O)NCCOCCOCCNS(=O)(=O)c1ccc(O[C@H]2c3ccccc3C[C@@H]2N2CCCCC2)cc1)NCCOCCOCCNS(=O)(=O)c1ccc(O[C@H]2c3ccccc3C[C@@H]2N2CCCCC2)cc1
InChI 
InChI=1S/C58H82N8O12S2/c67-57(61-27-35-73-39-41-75-37-29-63-79(69,70)49-21-17-47(18-22-49)77-55-51-15-5-3-13-45(51)43-53(55)65-31-9-1-10-32-65)59-25-7-8-26-60-58(68)62-28-36-74-40-42-76-38-30-64-80(71,72)50-23-19-48(20-24-50)78-56-52-16-6-4-14-46(52)44-54(56)66-33-11-2-12-34-66/h3-6,13-24,53-56,63-64H,1-2,7-12,25-44H2,(H2,59,61,67)(H2,60,62,68)/t53-,54-,55-,56-/m0/s1
InChIKey 
DYNNACXRJIVDFN-YKLCXBGOSA-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
Activity
762990
Binding sites
PF00999

External resources

Open this ligand in third-party databases and cheminformatics tools.

Other ligands for this protein

Quick navigation to other ligands bound to KP13_04775.

PDB 2

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)