Protein profile

PA3247

aminopeptidase

Genome: NC_002516.2

Gene: PA3247 apeB Structure source: Experimental + AlphaFold UniProt Q9HYZ3
Amino acids 429
Annotations 6
Features 25
PDB binders 3
Druggability 0.535

Overview

Basic information about this protein and its source genome.

Accession
PA3247
Gene
PA3247 apeB
Status
annotated
Amino acids
429
Structure source
Experimental + AlphaFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
51.786
Human E-value
6.940000000000001e-31
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 0.535
Structure
Pocket

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

5
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0004177 Catalysis of the hydrolysis of a single N-terminal amino acid residue from a polypeptide chain.
  • GO:0008237 Catalysis of the hydrolysis of peptide bonds 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:0008270 Binding to a zinc ion (Zn).
  • 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.

25 records
Show feature table
Start End DB Term Name
301 317 PRINTS PR00932 Aminopeptidase I zinc metalloprotease (M18) signature
301 317 InterPro IPR001948 Peptidase M18
109 129 PRINTS PR00932 Aminopeptidase I zinc metalloprotease (M18) signature
109 129 InterPro IPR001948 Peptidase M18
76 92 PRINTS PR00932 Aminopeptidase I zinc metalloprotease (M18) signature
76 92 InterPro IPR001948 Peptidase M18
144 161 PRINTS PR00932 Aminopeptidase I zinc metalloprotease (M18) signature
144 161 InterPro IPR001948 Peptidase M18
390 405 PRINTS PR00932 Aminopeptidase I zinc metalloprotease (M18) signature
390 405 InterPro IPR001948 Peptidase M18
262 280 PRINTS PR00932 Aminopeptidase I zinc metalloprotease (M18) signature
262 280 InterPro IPR001948 Peptidase M18
86 218 Gene3D G3DSA:2.30.250.10 Aminopeptidase i, Domain 2
86 218 InterPro IPR023358 Peptidase M18, domain 2
1 425 Hamap MF_00467 Probable M18 family aminopeptidase 2 [apeB].
1 425 InterPro IPR022984 M18 family aminopeptidase 2, putative
86 218 FunFam G3DSA:2.30.250.10:FF:000003 Probable M18 family aminopeptidase 2
88 213 SUPERFAMILY SSF101821 Aminopeptidase/glucanase lid domain
12 423 Pfam PF02127 Aminopeptidase I zinc metalloprotease (M18)
12 423 InterPro IPR001948 Peptidase M18
4 423 SUPERFAMILY SSF53187 Zn-dependent exopeptidases
4 425 PANTHER PTHR28570 ASPARTYL AMINOPEPTIDASE
4 425 InterPro IPR001948 Peptidase M18
10 422 Gene3D G3DSA:3.40.630.10 Zn peptidases
6 424 CDD cd05639 M18

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

6 + 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 3WT4
X-ray 2.30 Å A,B,C,D
100.0% 1-429
Viewing
PDB 4NJR
X-ray 2.30 Å A,B,C,D
100.0% 1-429
Loaded
PDB 4OID
X-ray 2.30 Å A,B,C,D
100.0% 1-429
Loaded
PDB 4OIW
X-ray 2.44 Å A,B,C,D,E,F
100.0% 1-429
Loaded
PDB 4NJQ
X-ray 2.70 Å A,B,C,D
100.0% 1-429
Loaded
PDB 2IJZ
X-ray 3.00 Å A,B,C,D,E,F,G,H,I,J,K,L
99.8% 2-429
Loaded
AlphaFold PA3247
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
9 0.387
2 0.248
5 0.205

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 30.52 0.935
2 25.7 0.908
3 22.65 0.882
4 22.22 0.879
5 17.22 0.799

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.

87 records

Highest-confidence structural evidence: ligands co-crystallized with this exact protein. If the source PDB is loaded in TPW, use Open crystal to inspect it in the structure viewer.

Show only:
Ligand Source crystal MW · LogP · TPSA Lipinski PAINS SMILES
NHE 207.3 Da LogP 0.80 TPSA 66.4 ✓ Ro5 ✓ Clean C1CCC(CC1)NCCS(=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.