Ligand profile

KAA

Ligand co-crystallized with a similar protein (Protein Data Bank).

Bound to: KP13_04408 — Elongation factor P-like protein

Via homolog PDB 3a5z UniProt P0A6N4 Formula C₁₆H₂₆N₈O₇S
Mol. weight 474.50 Da
Permeability Check
PAINS Clean

Identifiers

Database identifiers and provenance.

Ligand ID
KAA
PDB
3a5z
UniProt (similar protein)
P0A6N4
Target protein
KP13_04408

Structure

2D representation rendered from SMILES.

Physicochemical properties

Computed with RDKit from SMILES.

Molecular weight 474.50 Da
LogP (Crippen) -3.14
H-bond donors 6
H-bond acceptors 14
TPSA 243.82 Ų
Rotatable bonds 10
Aromatic rings 2 / 3
Heavy atoms 32
Fraction sp³ C 0.62
Formula C₁₆H₂₆N₈O₇S

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 243.8
  • −1 ≤ LogP ≤ 5 -3.14
Lipinski's Rule of Five Fail 2 violations
  • MW ≤ 500 Da 474.5
  • LogP ≤ 5 -3.14
  • H-bond donors ≤ 5 6
  • H-bond acceptors ≤ 10 14
Veber's rules Fail
  • Rotatable bonds ≤ 10 10
  • TPSA ≤ 140 Ų 243.8
PAINS Clean

No PAINS structural alerts detected.

Chemical representations

Canonical representations for cheminformatics workflows.

SMILES 
c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COS(=O)(=O)NC(=O)[C@H](CCCCN)N)O)O)N
InChI 
InChI=1S/C16H26N8O7S/c17-4-2-1-3-8(18)15(27)23-32(28,29)30-5-9-11(25)12(26)16(31-9)24-7-22-10-13(19)20-6-21-14(10)24/h6-9,11-12,16,25-26H,1-5,17-18H2,(H,23,27)(H2,19,20,21)/t8-,9+,11+,12+,16+/m0/s1
InChIKey 
NARKTLKJPPMFJF-LEJQEAHTSA-N

Provenance

Annotation context from LigQ_2, the internal Target step that collects PDB, ChEMBL, and ZINC ligand evidence.

Method
LigQ nearest_k
Source
PDB
Binding sites
PF00152' 'PF08207

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_04408.

ZINC 50

Virtual screening candidates selected by structural similarity to known actives (Tanimoto ≥ 0.5).

Compound Similarity (Tanimoto)