Protein profile

PA5396

hypothetical protein

Genome: NC_002516.2

Gene: PA5396 Structure source: Experimental + AlphaFold UniProt Q9HTG8
Amino acids 325
Annotations 5
Features 10
PDB binders 7
Druggability 0.588

Overview

Basic information about this protein and its source genome.

Accession
PA5396
Gene
PA5396
Status
annotated
Amino acids
325
Structure source
Experimental + AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
39.024
Human E-value
3.76e-14
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 0.588
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Gene Ontology (GO)

5
  • 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:0042426 The chemical reactions and pathways resulting in the breakdown of choline (2-hydroxyethyltrimethylammonium), an amino alcohol that occurs widely in living organisms as a constituent of certain types of phospholipids and in the neurotransmitter acetylcholine.
  • GO:0031457 The chemical reactions and pathways resulting in the breakdown of glycine betaine, N-trimethylglycine.
  • GO:0006508 The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

Sequence Features

Domain/signature hits from InterPro and related databases.

10 records
Show feature table
Start End DB Term Name
9 324 SUPERFAMILY SSF51556 Metallo-dependent hydrolases
9 324 InterPro IPR032466 Metal-dependent hydrolase
27 323 PANTHER PTHR10443 MICROSOMAL DIPEPTIDASE
27 323 InterPro IPR008257 Peptidase M19
1 325 ProSiteProfiles PS51365 Renal dipeptidase family profile.
1 325 InterPro IPR008257 Peptidase M19
6 320 Pfam PF01244 Membrane dipeptidase (Peptidase family M19)
6 320 InterPro IPR008257 Peptidase M19
2 325 FunFam G3DSA:3.20.20.140:FF:000010 Membrane dipeptidase
2 325 Gene3D G3DSA:3.20.20.140 -

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

1 + 1

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

Entry Method Resolution Chain Coverage Links Status
PDB 2I5G
X-ray 2.60 Å A,B
99.7% 2-325
Viewing
AlphaFold PA5396
AlphaFold full sequence Loaded
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
2 0.588
1 0.419

Pockets (P2RANK)

Showing top-ranked P2Rank candidates by probability. Probability is color-coded per P2Rank calibration: high (≥ 0.5), medium (0.2 – 0.49), low (< 0.2).

P2RANK Sticks Spheres Surfaces Score Probability Labels Zoom Positions
1 29.54 0.932
2 3.18 0.109
3 2.28 0.057
4 1.01 0.006
5 0.94 0.005

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.