Protein target profile

VK055_0671

catalase/peroxidase HPI

Genome: KpATCC43816 Gene: katG AIK79294.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism 4 reactions UniProt A0A0H3GQ65
Length 725
Pocket druggability 0.988
Metabolic reactions 4
Chokepoint Yes
Direct ligand evidence 0 56 total records
Functional annotation 1 EC 8 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
2.7% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
82.759 Higher values support similarity to known essential genes.
DEG E-value
0.0 Smaller values mean stronger essential-gene similarity.

Localization

Localization
Cytoplasmic

Structure confidence

ColabFold pLDDT
95.22 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

The selected pocket score is the FPocket value used for ranking after applying the curated structure priority. It estimates small-molecule pocket quality; it is not experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

FPocket 0.988
Structure A0A0H3GQ65
Pocket Pocket 2
P2Rank 0.985
Structure A0A0H3GQ65
Pocket Pocket 1
ColabFold model
FPocket 0.951 · Pocket 1
P2Rank 0.986 · Pocket 1
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 128 / 4744 genomes with a hit
Prevalence 2.7%

Cross-references

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

Metabolic context

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

Explore metabolic network

Attractive metabolic target: catalyzes a consuming chokepoint reaction, more central than 90.8% of genes in this genome, no human homolog detected.

Relative network centrality 90.8% more central than 90.8% 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 reactions

4 reactions 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.

MSTSNDPSNNASAGKCPFHAETPKQSAGSGTANRDWWPNQLRVDLLNQHSNRSNPLGENFNYREEFKKLDYSALKADLRALLTDSQEWWPADWGSYIGLFIRMAWHGAGTYRTVDGRGGAGRGQQRFAPLNSWPDNVSLDKARRLLWPVKQKYGQKISWADLYMLAGNVALENAGFRTFGFGAGREDVWEPDLDVDWGDEKEWLAHRHPESLAKQAIGATEMGLIYVNPEGPNASGEPLSAAAAIRATFGNMAMDDEEIVALIAGGHTLGKTHGAAETSHVGAEPEAAPLEAQGLGWHSSYGSGAGADAITSGLEVVWTQTPTQWSNYFFENLFKYEWVQTRSPAGAIQFEAKDAPEIIPDPFNPEKKRKPTMLVTDLTLRFDPEFEKISRRFLNDPQAFNEAFARAWFKLTHRDMGPKSRYLGPEVPKEDLIWQDPLPAATHQPSAEDIASLKSAIAGAGLSVSELVSVAWASASTFRGGDKRGGANGARLALAPQKDWPVNAIASRVLPTLQAIQRASGKASLADIIVLAGVVGVEQAAAAAGVSVNVPFTPGRVDALPEQTDVESFDLLQPLADGFRNYRRIEGGVSTETLLIDKAQQLTLTAPEMTVLVGGLRVLGANYDGSKHGVFTDRVGVLSNDFFVNLLDMATVWKAADDNAELFTGSDRKTGEAKYSATRVDLVFGSNSVLRALAEVYACADGQQKLVHDFVAAWTKVMNLDRFDL

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0006979 Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
  • GO:0004096 Catalysis of the reaction: 2 H2O2 = O2 + 2 H2O.
  • GO:0020037 Binding to a heme, a compound composed of iron complexed in a porphyrin (tetrapyrrole) ring.
  • GO:0004601 Catalysis of the reaction: a reduced substrate + ROOH = an oxidized substrate + ROH + H2O.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0046872 Binding to a metal ion.
  • GO:0070301 Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a hydrogen peroxide (H2O2) stimulus.
  • GO:0042744 The chemical reactions and pathways resulting in the breakdown of hydrogen peroxide (H2O2).

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

45 records
Show feature table
Start End DB Term Name
435 725 Gene3D G3DSA:1.10.520.10 -
435 725 SUPERFAMILY SSF48113 Heme-dependent peroxidases
435 725 InterPro IPR010255 Haem peroxidase superfamily
1 33 MobiDBLite mobidb-lite consensus disorder prediction
32 430 Gene3D G3DSA:1.10.520.10 -
436 722 CDD cd08200 catalase_peroxidase_2
318 333 PRINTS PR00458 Haem peroxidase superfamily signature
318 333 InterPro IPR002016 Haem peroxidase
175 187 PRINTS PR00458 Haem peroxidase superfamily signature
175 187 InterPro IPR002016 Haem peroxidase
157 174 PRINTS PR00458 Haem peroxidase superfamily signature
157 174 InterPro IPR002016 Haem peroxidase
259 274 PRINTS PR00458 Haem peroxidase superfamily signature
259 274 InterPro IPR002016 Haem peroxidase
97 111 PRINTS PR00458 Haem peroxidase superfamily signature
97 111 InterPro IPR002016 Haem peroxidase
198 395 Gene3D G3DSA:1.10.420.10 Peroxidase, domain 2
578 701 FunFam G3DSA:1.10.420.10:FF:000004 Catalase-peroxidase
11 725 Hamap MF_01961 Catalase-peroxidase [katG].
11 725 InterPro IPR000763 Catalase-peroxidase haem
403 698 Pfam PF00141 Peroxidase
403 698 InterPro IPR002016 Haem peroxidase
83 396 Pfam PF00141 Peroxidase
83 396 InterPro IPR002016 Haem peroxidase
24 725 NCBIfam TIGR00198 catalase/peroxidase HPI
24 725 InterPro IPR000763 Catalase-peroxidase haem
33 221 FunFam G3DSA:1.10.520.10:FF:000002 Catalase-peroxidase
29 429 SUPERFAMILY SSF48113 Heme-dependent peroxidases
29 429 InterPro IPR010255 Haem peroxidase superfamily
574 701 Gene3D G3DSA:1.10.420.10 Peroxidase, domain 2
139 424 ProSiteProfiles PS50873 Plant heme peroxidase family profile.
139 424 InterPro IPR002016 Haem peroxidase
1 725 PANTHER PTHR30555 HYDROPEROXIDASE I, BIFUNCTIONAL CATALASE-PEROXIDASE
1 725 InterPro IPR000763 Catalase-peroxidase haem
479 505 PRINTS PR00460 Bacterial haem catalase-peroxidase signature
479 505 InterPro IPR000763 Catalase-peroxidase haem
59 72 PRINTS PR00460 Bacterial haem catalase-peroxidase signature
59 72 InterPro IPR000763 Catalase-peroxidase haem
267 290 PRINTS PR00460 Bacterial haem catalase-peroxidase signature
267 290 InterPro IPR000763 Catalase-peroxidase haem
74 99 PRINTS PR00460 Bacterial haem catalase-peroxidase signature
74 99 InterPro IPR000763 Catalase-peroxidase haem
33 55 PRINTS PR00460 Bacterial haem catalase-peroxidase signature
33 55 InterPro IPR000763 Catalase-peroxidase haem
198 395 FunFam G3DSA:1.10.420.10:FF:000002 Catalase-peroxidase

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 · FPocket

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

Site 1 FPocket #2
0.988
Likely same site as P2Rank 1 1.1 Å 36 shared residues 92% of smaller site
Unusual size
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Surrounding area

Binding pockets · P2Rank

Probability: high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Site 1 P2Rank #1
0.985
Likely same site as FPocket 2 1.1 Å 36 shared residues 92% of smaller site
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.272
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.234
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.214
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Surrounding area
Site 5 P2Rank #5
0.199
Show in viewer
Surrounding area
Residue sets
UniProt: Active site:106-106 Proton acceptor
UniProt: Binding site:267-267 axial binding residue
UniProt: Site:102-102 Transition state stabilizer
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_A0A0H3GQ65
AlphaFold DB full sequence Viewing
ColabFold VK055_0671
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.

56 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 6 records from similar proteins
Structural ligands 6 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
DDJ PDB via homolog 244.3 Da · LogP 2.54 · TPSA 70.5 Open detail RCSB PDB
FLC PDB via homolog Detail RCSB PDB
NIZ PDB via homolog Detail RCSB PDB
O PDB via homolog Detail RCSB PDB
OXY PDB via homolog Detail RCSB PDB

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
DDJ RCSB PDB O59651 244.3 Da LogP 2.54 TPSA 70.5 ✓ Ro5 ✓ Clean COc1cc(ccc1N)c2ccc(c(c2)OC)N
FLC RCSB PDB A4QUT2 189.1 Da LogP -5.25 TPSA 140.6 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(CC(=O)[O-])(C(=O)[O-])O
NIZ RCSB PDB Q31MN3 137.1 Da LogP -0.31 TPSA 68.0 ✓ Ro5 ✓ Clean c1cnccc1C(=O)NN
O RCSB PDB Q3JNW6 18.0 Da LogP -0.82 TPSA 31.5 ✓ Ro5 ✓ Clean O
OXY RCSB PDB Q3JNW6 32.0 Da LogP 0.07 TPSA 34.1 ✓ Ro5 ✓ Clean O=O
SHA RCSB PDB O59651 153.1 Da LogP 0.51 TPSA 69.6 ✓ Ro5 ✓ Clean c1ccc(c(c1)C(=O)NO)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.