Ligand profile

ZINC256013684

Virtual-screening candidate from ZINC.

Bound to: KP13_00473 — Biofilm PGA synthesis lipoprotein pgaB

Via homolog UniProt P75906 Formula C₆H₁₄NO₈P
Tanimoto 0.50
Mol. weight 259.15 Da
Permeability Check
PAINS Clean

Identifiers

Database identifiers and provenance.

Ligand ID
ZINC256013684
UniProt (similar protein)
P75906
Tanimoto
0.500
Target protein
KP13_00473

Structure

2D representation rendered from SMILES.

Physicochemical properties

Computed with RDKit from SMILES.

Molecular weight 259.15 Da
LogP (Crippen) -3.14
H-bond donors 6
H-bond acceptors 7
TPSA 162.70 Ų
Rotatable bonds 3
Aromatic rings 0 / 1
Heavy atoms 16
Fraction sp³ C 1.00
Formula C₆H₁₄NO₈P

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 162.7
  • −1 ≤ LogP ≤ 5 -3.14
Lipinski's Rule of Five Pass 1 violation
  • MW ≤ 500 Da 259.2
  • LogP ≤ 5 -3.14
  • H-bond donors ≤ 5 6
  • H-bond acceptors ≤ 10 7
Veber's rules Fail
  • Rotatable bonds ≤ 10 3
  • TPSA ≤ 140 Ų 162.7
PAINS Clean

No PAINS structural alerts detected.

Chemical representations

Canonical representations for cheminformatics workflows.

SMILES 
N[C@@H]1[C@H](OP(=O)(O)O)O[C@H](CO)[C@H](O)[C@H]1O
InChI 
InChI=1S/C6H14NO8P/c7-3-5(10)4(9)2(1-8)14-6(3)15-16(11,12)13/h2-6,8-10H,1,7H2,(H2,11,12,13)/t2-,3+,4+,5+,6+/m1/s1
InChIKey 
YMJBYRVFGYXULK-URLGYRAOSA-N

Provenance

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

Method
LigQ nearest_k
Query
GCS
Homolog
P75906

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_00473.

PDB 1

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

Ligand PDB entry

ZINC 49

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

Compound Similarity (Tanimoto)