Protein profile

PA4472

PmbA protein

Genome: NC_002516.2

Gene: pmbA PA4472 Structure source: Experimental + AlphaFold UniProt Q9HVU9
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Amino acids 449
Annotations 5
Features 13
PDB binders 1
Druggability 0.755

Overview

Basic information about this protein and its source genome.

Accession
PA4472
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
pmbA PA4472
Status
annotated
Amino acids
449
Structure source
Experimental + AlphaFold
GO
GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes. GO:1905368 A protein complex which is capable of peptidase activity. 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:0016485 Any protein maturation process achieved by the cleavage of a peptide bond or bonds within a protein. Protein maturation is the process leading to the attainment of the full functional capacity of a protein. GO:0006508 The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Gut microbiome off-target
hit
Essential (DEG)
Y
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 0.755
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:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:1905368 A protein complex which is capable of peptidase activity.
  • 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:0016485 Any protein maturation process achieved by the cleavage of a peptide bond or bonds within a protein. Protein maturation is the process leading to the attainment of the full functional capacity of a protein.
  • 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.

13 records
Show feature table
Start End DB Term Name
1 235 Gene3D G3DSA:3.30.2290.10 PmbA/TldD superfamily
1 235 InterPro IPR035068 Metalloprotease TldD/PmbA, N-terminal
15 449 PANTHER PTHR43421 METALLOPROTEASE PMBA
15 449 InterPro IPR047657 Metalloprotease PmbA
3 235 FunFam G3DSA:3.30.2290.10:FF:000002 Metalloprotease PmbA homolog
242 448 Pfam PF19289 PmbA/TldA metallopeptidase C-terminal domain
242 448 InterPro IPR045569 Metalloprotease TldD/E, C-terminal domain
36 99 Pfam PF01523 PmbA/TldA metallopeptidase domain 1
36 99 InterPro IPR002510 Metalloprotease TldD/E, N-terminal domain
127 233 Pfam PF19290 PmbA/TldA metallopeptidase central domain
127 233 InterPro IPR045570 Metalloprotease TldD/E, central domain
15 449 SUPERFAMILY SSF111283 Putative modulator of DNA gyrase, PmbA/TldD
15 449 InterPro IPR036059 Metalloprotease TldD/PmbA superfamily

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 3QTD
X-ray 2.70 Å A,B,C,D
100.0% 1-449
PDBe RCSB PDBj File
Viewing
AlphaFold PA4472
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
1 0.755

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 11.69 0.621
2 4.1 0.165
3 2.66 0.078
4 2.64 0.077
5 1.7 0.029

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.

12 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
BB2
5NJB
P0AGG8 385.5 Da LogP 1.20 TPSA 119.0 ✓ Ro5 ✓ Clean CCCCC[C@H](CC(=O)NO)C(=O)N[C@@H](C(C)C)C(=O)N1C…

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.