Protein profile

PA2393

dipeptidase

Genome: NC_002516.2

Gene: PA2393 Structure source: AlphaFold UniProt Q9I187
Amino acids 448
Annotations 4
Features 18
PDB binders 7
Druggability 0.808

Overview

Basic information about this protein and its source genome.

Accession
PA2393
Gene
PA2393
Status
annotated
Amino acids
448
Structure source
AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
35.294
Human E-value
8.77e-13
Gut microbiome off-target
hit
Essential (DEG)
N
Localization
Cytoplasmic

Selected Druggability evidence

Selected Druggability is the FPocket score chosen for ranking using the curated structure priority. The 3D viewer may show a different loaded structure, so its visible pockets can differ.

FPocket 0.808
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

4 GO

Gene Ontology (GO)

4
  • GO:0016805 Catalysis of the hydrolysis of a dipeptide.
  • GO:0070573 Catalysis of the hydrolysis of a dipeptide by a mechanism in which water acts as a nucleophile, one or two metal ions hold the water molecule in place, and charged amino acid side chains are ligands for the metal ions.
  • GO:0006508 The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
  • GO:0002049 The chemical reactions and pathways resulting in the formation of the siderochrome pyoverdine.

Sequence Features

Domain/signature hits from InterPro and related databases.

18 records
Show feature table
Start End DB Term Name
1 27 Phobius SIGNAL_PEPTIDE Signal peptide region
305 362 Gene3D G3DSA:1.10.287.650 L27 domain
49 436 Pfam PF01244 Membrane dipeptidase (Peptidase family M19)
49 436 InterPro IPR008257 Peptidase M19
9 20 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
28 448 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
40 448 ProSiteProfiles PS51365 Renal dipeptidase family profile.
40 448 InterPro IPR008257 Peptidase M19
56 433 CDD cd01301 rDP_like
56 433 InterPro IPR008257 Peptidase M19
1 8 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
9 28 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
21 27 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
3 443 PANTHER PTHR10443 MICROSOMAL DIPEPTIDASE
3 443 InterPro IPR008257 Peptidase M19
46 439 Gene3D G3DSA:3.20.20.140 -
42 443 SUPERFAMILY SSF51556 Metallo-dependent hydrolases
42 443 InterPro IPR032466 Metal-dependent hydrolase

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

3D visualization script Full viewer

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Structural evidence

0 + 1

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold PA2393
AlphaFold full sequence Viewing
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

Pockets (FPOCKET)

Showing top-ranked FPocket candidates by druggability. Druggability is color-coded: high (0.7 or higher), medium (0.4 to 0.69), low (below 0.4).

FPOCKET Sticks Spheres Surfaces Druggability Labels Zoom Positions
1 0.808

Ligand evidence

Ligands grouped by evidence source. PDB ligands keep the source crystal visible, and loaded crystals can be opened directly in the structure viewer.

157 records

Structural evidence inferred from similar proteins. The source crystal indicates where the ligand was observed; the UniProt column identifies the homologous protein carrying that ligand.

Show only:
Ligand Source crystal UniProt (homolog) MW · LogP · TPSA Lipinski PAINS SMILES
B88 Q93J45 239.2 Da LogP -0.26 TPSA 137.9 ✓ Ro5 ✓ Clean C[C@H](N)[P@](=O)(C[C@@H](CC(=O)O)C(=O)O)O
L3A Q93J45 237.2 Da LogP 1.31 TPSA 100.6 ✓ Ro5 ✓ Clean C[C@@H](CP(=O)([C@H](CC(C)C)N)O)C(=O)O
LDE Q93J45 295.3 Da LogP 1.15 TPSA 137.9 ✓ Ro5 ✓ Clean CC(C)C[C@H](N)P(=O)(C[C@H](CCC(=O)O)C(=O)O)O
LY0 Q3IZQ3 195.2 Da LogP 0.28 TPSA 100.6 ✓ Ro5 ✓ Clean C[C@@H](C[P@](=O)([C@H](C)N)O)C(=O)O
P4D Q93J45 331.3 Da LogP 0.67 TPSA 158.2 ✓ Ro5 ✓ Clean c1cc(ccc1C[C@H](N)P(=O)(C[C@H](CC(=O)O)C(=O)O)O…
P5D Q93J45 315.3 Da LogP 0.96 TPSA 137.9 ✓ Ro5 ✓ Clean c1ccc(cc1)C[C@H](N)P(=O)(C[C@H](CC(=O)O)C(=O)O)O
P8D Q93J45 239.2 Da LogP -0.26 TPSA 137.9 ✓ Ro5 ✓ Clean C[C@H](N)[P@@](=O)(C[C@H](CC(=O)O)C(=O)O)O

PDB and ChEMBL records on this protein are shown in full. ChEMBL records from similar proteins are capped at the top 100 per protein (by pchembl) and ZINC at the top 50 (Tanimoto ≥ 0.5). ADME columns are descriptor-based screening flags, not experimental toxicity results.