KpATCC43816 Protein target profile

4-hydroxyphenylacetate 3-monooxygenase, oxygenase component

Accession: VK055_2659

Gene: AIK81253.1 hpaB 3D evidence: AlphaFold DB model + ColabFold model Metabolism 1 reaction UniProt A0A0H3GR70
Length 520
Pocket druggability (P2Rank · AlphaFold DB model) 0.904
Metabolic reactions 1
Chokepoint Yes
Direct ligand evidence 0 53 total records
Functional annotation 1 EC 5 GO
Target summary

Strong target candidate with converging metabolic, structural and chemical evidence.

Automated synthesis of the evidence currently loaded. Review the underlying records before prioritizing this protein.

Terms and data sources used on this page

PDB: experimentally determined structures from the Protein Data Bank. These are the strongest structural evidence, but may cover only part of the protein.

AlphaFold DB model: a precomputed predicted structure downloaded from AlphaFold Database/UniProt, not an experiment performed here.

ColabFold model: a predicted structure generated for this workspace; interpret it with coverage and confidence.

pLDDT: confidence score for predicted structures. High values support local geometry; low values mean the region should not drive pocket interpretation.

FPocket / P2Rank: software tools that predict possible ligand-binding pockets on a 3D structure. They are useful screening signals, not experimental validation.

Druggability: a pocket-based estimate of whether a small molecule could bind productively. It does not mean a drug already exists.

PDB ligand: a compound observed in an experimental structure. Direct same-protein records are stronger than homolog-transferred records.

ChEMBL: a public database of measured compound bioactivity. Direct entries are stronger than entries transferred from similar proteins.

ZINC: a purchasable-compound database. Here it marks proposed candidates from chemical similarity, not measured binders.

LigQ / LigQ_2: an internal Target pipeline step that gathers PDB, ChEMBL, and ZINC ligand evidence for each protein.

Off-target: sequence similarity to proteins we prefer not to hit, such as human proteins or beneficial gut microbiome proteins.

DEG: Database of Essential Genes. A match suggests the protein resembles genes known to be essential in other organisms.

Roary / CoreCruncher: pan-genome tools used to decide whether a gene is core across analyzed strains or accessory/strain-specific.

EC / GO: functional annotations: EC describes enzyme reactions; GO describes biological process, molecular function, or cellular component.

KEGG pathway: a curated metabolic route label used here to group reactions imported from the metabolic model.

Chokepoint: a metabolic reaction that is the only producer or consumer of a metabolite in the imported model.

Prioritization evidence

Selectivity, essentiality, structural confidence, conservation, and predicted binding-site evidence.

Off-target risk

Human off-target
No hit
Gut microbiome similarity
1.2% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
N
DEG identity (%)
0.0 Higher values support similarity to known essential genes.

Structure confidence

ColabFold pLDDT
96.68 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

P2Rank's binding-site probability is the primary druggability signal shown across the app; FPocket's druggability score is shown alongside it for comparison. Both estimate small-molecule pocket quality after applying the curated structure priority — neither is experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

Druggability (P2Rank) 0.904
Structure A0A0H3GR70
Pocket Pocket 1
Druggability (FPocket) 0.876
Structure A0A0H3GR70
Pocket Pocket 29
ColabFold model
P2Rank 0.615 · Pocket 1
FPocket 0.972 · Pocket 23
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 55 / 4744 genomes with a hit
Prevalence 1.2%

Metabolic context

Reactions catalyzed, pathway membership, and centrality in the genome-scale metabolic network.

Explore metabolic network

Attractive metabolic target: catalyzes a producing chokepoint reaction, no isoenzyme backup detected, more central than 95.0% of genes in this genome, no human homolog detected.

Relative network centrality 95.0% more central than 95.0% of genes in this genome
Chokepoint Chokepoint gene
Pathways

No specific KEGG pathway assigned - this reaction either has no KEGG mapping, or only matches a generic overview map with no route-level information.

Catalyzed reaction

1 reaction mapped to this gene in the metabolic model. Open the full network to see each one, with substrates/products and the reaction-reaction map.

Imported from KpATCC43816.sbml · 2026-07-09

Sequence

Primary amino-acid sequence viewer.

MKPEDFRADAKRPLTGEEYLKSLQDGREIYIYGERVKDVTTHPAFRNAAASVAQLYDALHKPEMQDSLCWGTDTGSGGYTHKFFRVAKSADDLRQQRDAIAEWSRLSYGWMGRTPDYKAAFGCALGANPAFYGQFEQNARNWYTRIQETGLYFNHAIVNPPIDRHKPADEVKDVYIKLEKETDAGIIVSGAKVVATNSALTHYNMIGFGSAQVMGENPDFALMFVAPMDAEGVKLISRASYEMVAGATGSPYDYPLSSRFDENDAILVMDKVLIPWENVLIYRDFDRCRRWTMEGGFARMYPLQACVRLAVKLDFITALLKRSLECTGTLEFRGVQADLGEVVAWRNMFWALSDSMCSEATPWVNGAWLPAHAALQTYRVMAPMAYAKIKNIIERNVTSGLIYLPSSARDLNNPQIDQYLAKYVRGSNGMDHVERIKILKLMWDAIGSEFGGRHELYEINYSGSQDEIRLQCLRQAQSSGNMDKMMAMVDRCLSEYDQNGWTVPHLHNNADINMLDKLLK

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Subcellular localization

Localization
Cytoplasmic

Enzyme Commission (EC)

1

Gene Ontology (GO)

5
  • GO:0016627 Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
  • GO:0010124 The chemical reactions and pathways resulting in the breakdown of phenylacetate.
  • GO:0050660 Binding to FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
  • GO:0016712 Catalysis of an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from reduced flavin or flavoprotein and one other donor, and one atom of oxygen is incorporated into one donor.
  • GO:0052881 Catalysis of the reaction: (4-hydroxyphenyl)acetate + FADH(2) + O2 = 3,4-dihydroxyphenylacetate + FAD + H+ + H2O.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

22 records
Show feature table
Start End DB Term Name
152 282 Gene3D G3DSA:2.40.110.10 -
152 282 InterPro IPR046373 Acyl-CoA oxidase/dehydrogenase, middle domain superfamily
13 282 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like
13 282 InterPro IPR009100 Acyl-CoA dehydrogenase/oxidase, N-terminal and middle domain superfamily
272 494 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like
272 494 InterPro IPR036250 Acyl-CoA dehydrogenase-like, C-terminal
288 488 Pfam PF03241 4-hydroxyphenylacetate 3-hydroxylase C terminal
288 488 InterPro IPR024719 HpaB/PvcC/4-BUDH C-terminal
6 514 PANTHER PTHR36117 4-HYDROXYPHENYLACETATE 3-MONOOXYGENASE-RELATED
6 514 InterPro IPR004925 HpaB/PvcC/4-BUDH
11 501 PIRSF PIRSF000331 HpaA_HpaB
11 501 InterPro IPR004925 HpaB/PvcC/4-BUDH
285 500 Gene3D G3DSA:1.20.140.10 -
13 151 FunFam G3DSA:1.10.3140.10:FF:000001 4-hydroxyphenylacetate 3-monooxygenase oxygenase component
2 520 NCBIfam TIGR02310 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component
2 520 InterPro IPR012688 4-hydroxyphenylacetate 3-monooxygenase oxygenase component, gammaproteobacteria
1 518 PIRSF PIRSF500125 4_HPA_large
1 518 InterPro IPR024677 4-HPA 3-monooxygenase large component/Pyoverdin chromophore biosynthetic protein
152 282 FunFam G3DSA:2.40.110.10:FF:000026 4-hydroxyphenylacetate 3-monooxygenase oxygenase component
15 280 Pfam PF11794 4-hydroxyphenylacetate 3-hydroxylase N terminal
15 280 InterPro IPR024674 HpaB/PvcC/4-BUDH N-terminal
14 151 Gene3D G3DSA:1.10.3140.10 -

3D structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; AlphaFold DB and ColabFold models typically cover the full protein but remain computational predictions.

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Pocket score High Medium Low
How colors and pocket overlays are used
Uniform protein color marks the displayed model as a single molecular object.
Experimental PDB structures may be colored by chain to distinguish subunits or copies present in the file.
Pocket colors and alpha spheres are evidence overlays for predicted binding cavities; they are not alternative protein chains.
'Alpha spheres' is FPocket's own cavity-shape geometry, imported when available and aligned with the loaded structure.
'Pocket atoms'/'Predicted site atoms' show the pocket's residue atoms instead: P2Rank reports residues rather than alpha spheres, and FPocket falls back to this when alpha-sphere geometry is unavailable or doesn't align.
'No pocket geometry' means neither alpha spheres nor residue-position data could be found for that pocket; the layer just highlights the same residues as 'Nearby residues'.
Pocket details Inspect a specific pocket, or open the full viewer

Binding pockets · P2Rank

Druggability (P2Rank): high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Pocket 1 P2Rank #1
0.904
Likely same site as FPocket 29 5.9 Å 30 shared residues 83% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.064
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Surrounding area
Pocket 3 P2Rank #3
0.032
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Surrounding area
Pocket 4 P2Rank #4
0.021
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Surrounding area
Pocket 5 P2Rank #5
0.01
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Surrounding area

Binding pockets · FPocket

Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4

Pocket 1 FPocket #29
0.876 Unusual size
Likely same site as P2Rank 1 5.9 Å 30 shared residues 83% of smaller site
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Surrounding area
Pocket 2 FPocket #30
0.743
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Surrounding area
Pocket 3 FPocket #7
0.624 Unusual size
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Surrounding area
Pocket 4 FPocket #27
0.256
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Surrounding area
Residue sets
UniProt: Binding site:155-157
UniProt: Binding site:196-196
All structural evidence 0 experimental · 2 predicted

Structural evidence

0 + 2

Experimental PDB entries plus predicted AlphaFold DB or ColabFold models. Click Switch to display a different loaded structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold DB AF_A0A0H3GR70
AlphaFold DB full sequence Viewing
ColabFold VK055_2659
ColabFold full sequence Loaded

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.

53 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 3 records from similar proteins
Structural ligands 3 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
4HP PDB via homolog 152.1 Da · LogP 1.02 · TPSA 57.5 Open detail RCSB PDB
FDA PDB via homolog Detail RCSB PDB
NPO PDB via homolog Detail RCSB PDB
ZINC32222424 ZINC proposed compound · Tanimoto 0.864 Detail ZINC
ZINC1507107 ZINC proposed compound · Tanimoto 0.857 Detail ZINC

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
4HP RCSB PDB Q5SJP8 152.1 Da LogP 1.02 TPSA 57.5 ✓ Ro5 ✓ Clean c1cc(ccc1CC(=O)O)O
FDA RCSB PDB Q53008 787.6 Da LogP -1.75 TPSA 363.3 3 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=C(N2)C(=O)NC(=O)N3)C[C@@H]([C…
NPO RCSB PDB Q53008 139.1 Da LogP 1.30 TPSA 63.4 ✓ Ro5 ✓ Clean c1cc(ccc1[N+](=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.

Cross-references

External database identifiers for this protein, its structures, ligands, and metabolic reactions.