Protein profile

PA3547

alginate lyase

Genome: NC_002516.2

Gene: PA3547 algL Structure source: Experimental + AlphaFold UniProt Q06749
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Amino acids 367
Annotations 7
Features 18
PDB binders 1
Druggability 0.88

Overview

Basic information about this protein and its source genome.

Accession
PA3547
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
PA3547 algL
Status
annotated
Amino acids
367
Structure source
Experimental + AlphaFold
EC
4.2.2.3
GO
GO:0042597 The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria). GO:0045135 Catalysis of the reaction: polysaccharides containing beta-D-mannuronate residues = oligosaccharides with 4-deoxy-alpha-L-erythro-hex-4-enopyranuronosyl end. This reaction is the eliminative cleavage of polysaccharides containing beta-D-mannuronate residues to give oligosaccharides with 4-deoxy-alpha-L-erythro-hex-4-enopyranuronosyl groups at their ends. GO:0004794 Catalysis of the reaction: L-threonine = 2-oxobutanoate + NH4. GO:0042121 The chemical reactions and pathways resulting in the formation of alginic acid, a hydrophilic polysaccharide occurring in, for example, the cell walls of brown algae (brown seaweeds). GO:0042122 The chemical reactions and pathways resulting in the breakdown of alginic acid, a hydrophilic polysaccharide occurring in, for example, the cell walls of brown algae (brown seaweeds). GO:0016829 Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Gut microbiome off-target
hit
Essential (DEG)
N
Localization
Periplasmic

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 0.88
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 6 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

6
  • GO:0042597 The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).
  • GO:0045135 Catalysis of the reaction: polysaccharides containing beta-D-mannuronate residues = oligosaccharides with 4-deoxy-alpha-L-erythro-hex-4-enopyranuronosyl end. This reaction is the eliminative cleavage of polysaccharides containing beta-D-mannuronate residues to give oligosaccharides with 4-deoxy-alpha-L-erythro-hex-4-enopyranuronosyl groups at their ends.
  • GO:0004794 Catalysis of the reaction: L-threonine = 2-oxobutanoate + NH4.
  • GO:0042121 The chemical reactions and pathways resulting in the formation of alginic acid, a hydrophilic polysaccharide occurring in, for example, the cell walls of brown algae (brown seaweeds).
  • GO:0042122 The chemical reactions and pathways resulting in the breakdown of alginic acid, a hydrophilic polysaccharide occurring in, for example, the cell walls of brown algae (brown seaweeds).
  • GO:0016829 Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.

Sequence Features

Domain/signature hits from InterPro and related databases.

18 records
Show feature table
Start End DB Term Name
28 367 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 27 Phobius SIGNAL_PEPTIDE Signal peptide region
9 20 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
63 303 Pfam PF05426 Alginate lyase
63 303 InterPro IPR008397 Alginate lyase domain
28 362 FunFam G3DSA:1.50.10.100:FF:000002 Alginate lyase
1 8 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
28 362 Gene3D G3DSA:1.50.10.100 Chondroitin AC/alginate lyase
28 362 InterPro IPR008929 Chondroitin AC/alginate lyase
30 361 SUPERFAMILY SSF48230 Chondroitin AC/alginate lyase
30 361 InterPro IPR008929 Chondroitin AC/alginate lyase
5 367 Hamap MF_00557 Alginate lyase [algL].
5 367 InterPro IPR022859 Alginate lyase
1 27 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM
21 27 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
24 361 CDD cd00244 AlgLyase
24 361 InterPro IPR022859 Alginate lyase
1 27 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM

3D Structure

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

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Structural evidence

3 + 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 4OZV
X-ray 1.64 Å A
91.3% 28-362
PDBe RCSB PDBj File
Viewing
PDB 4OZW
X-ray 1.64 Å A
91.3% 28-362
PDBe RCSB PDBj File
Loaded
PDB 7SA8
X-ray 2.50 Å A
91.3% 28-362
PDBe RCSB PDBj File
Loaded
AlphaFold PA3547
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 0.607

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 41.14 0.965
2 0.83 0.003

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.

20 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
BEM
4OZV 1.64 Å Open crystal
194.1 Da LogP -3.13 TPSA 127.5 ✓ Ro5 ✓ Clean [C@@H]1([C@@H]([C@H](O[C@H]([C@H]1O)O)C(=O)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.