Ligand profile

CHEMBL3947060

Bioactivity hit from ChEMBL on a similar protein.

Bound to: VK055_5137 — na+/H+ antiporter

Via homolog UniProt P48764 Formula C₈₆H₁₂₀Cl₆N₁₄O₂₁S₃
pchembl 8.37 ~4.3 nM
Mol. weight 1994.90 Da
Permeability Check
PAINS Clean

Identifiers

Database identifiers and provenance.

Ligand ID
CHEMBL3947060
UniProt (similar protein)
P48764
pchembl
8.370 (~4.3 nM)
Target protein
VK055_5137

Structure

2D representation rendered from SMILES.

Physicochemical properties

Computed with RDKit from SMILES.

Molecular weight 1994.90 Da
LogP (Crippen) 6.39
H-bond donors 16
H-bond acceptors 24
TPSA 469.28 Ų
Rotatable bonds 55
Aromatic rings 6 / 9
Heavy atoms 130
Fraction sp³ C 0.53
Formula C₈₆H₁₂₀Cl₆N₁₄O₂₁S₃

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 469.3
  • −1 ≤ LogP ≤ 5 6.39
Lipinski's Rule of Five Fail 4 violations
  • MW ≤ 500 Da 1994.9
  • LogP ≤ 5 6.39
  • H-bond donors ≤ 5 16
  • H-bond acceptors ≤ 10 24
Veber's rules Fail
  • Rotatable bonds ≤ 10 55
  • TPSA ≤ 140 Ų 469.3
PAINS Clean

No PAINS structural alerts detected.

Chemical representations

Canonical representations for cheminformatics workflows.

SMILES 
CN1Cc2c(Cl)cc(Cl)cc2[C@H](c2cccc(S(=O)(=O)NCCOCCOCCNC(=O)NCCCC(CCCNC(=O)NCCOCCOCCNS(=O)(=O)c3cccc([C@@H]4CN(C)Cc5c(Cl)cc(Cl)cc54)c3)(CCCNC(=O)NCCOCCOCCNS(=O)(=O)c3cccc([C@@H]4CN(C)Cc5c(Cl)cc(Cl)cc54)c3)NC(=O)NC[C@H](O)[C@H](O)[C@H](O)[C@H](O)CO)c2)C1
InChI 
InChI=1S/C86H120Cl6N14O21S3/c1-104-50-69(66-43-60(87)46-75(90)72(66)53-104)57-10-4-13-63(40-57)128(116,117)100-25-31-125-37-34-122-28-22-96-82(112)93-19-7-16-86(103-85(115)99-49-78(108)80(110)81(111)79(109)56-107,17-8-20-94-83(113)97-23-29-123-35-38-126-32-26-101-129(118,119)64-14-5-11-58(41-64)70-51-105(2)54-73-67(70)44-61(88)47-76(73)91)18-9-21-95-84(114)98-24-30-124-36-39-127-33-27-102-130(120,121)65-15-6-12-59(42-65)71-52-106(3)55-74-68(71)45-62(89)48-77(74)92/h4-6,10-15,40-48,69-71,78-81,100-102,107-111H,7-9,16-39,49-56H2,1-3H3,(H2,93,96,112)(H2,94,97,113)(H2,95,98,114)(H2,99,103,115)/t69-,70-,71-,78-,79+,80-,81+/m0/s1
InChIKey 
XWHKPBGXRDTUHZ-PJASTPJGSA-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
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 VK055_5137.

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)