KpATCC43816 Protein target profile

2-halobenzoate 1,2-dioxygenase large subunit

Accession: VK055_0611

Gene: AIK79234.1 cbdA 3D evidence: AlphaFold DB model + ColabFold model Metabolism 4 reactions UniProt A0A0H3GNW3
Length 460
Pocket druggability (P2Rank · AlphaFold DB model) 0.723
Metabolic reactions 4
Chokepoint No
Direct ligand evidence 0 68 total records
Functional annotation 0 EC 4 GO
Target summary

Promising target candidate with multiple supporting evidence streams.

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
0.6% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
94.94 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) 0.723
Structure A0A0H3GNW3
Pocket Pocket 1
Druggability (FPocket) 0.294
Structure A0A0H3GNW3
Pocket Pocket 14
ColabFold model
P2Rank 0.71 · Pocket 1
FPocket 0.344 · Pocket 3
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 29 / 4744 genomes with a hit
Prevalence 0.6%

Metabolic context

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

Explore metabolic network

Metabolic context: no human homolog detected.

Relative network centrality 0.0% more central than 0.0% of genes in this genome
Chokepoint Not a chokepoint
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.

MQKTLSTLKDKINNALVVDRENHIYRCHRSIFTDPQLFEFEMKHIFEGNWVFLAHESQIPQPGDYYTLTLGRQPVIITRDKKNELHALINSCAHRGAMLCRRKTGNKNSFTCPFHGWTFSNNGKLLKAKDESTGGYPPSFKQDGSHDLQKLPRFQSYRGFLFGSLKADVQPLEAYLGETCKIIDLIVDQAPEGLEVLKGSSSYVYEGNWKLGAENGADGYHVSVVHWNYASTMSRRNYEAEGTHAVDANGWSKSLGGGYGFDNGHMLLWTRALNPEVRPVYAHRERLQAEFGERRADQMVNETRNLCLYPNVYLMDQFSTQIRVIRPIAVDKTEVTIWCFAPKGESDQARALRIRQYEDFFNVSGMGTPDDLEEFSACQRGFLGENLPWSDLSRGALRWVDGADEHAQHAGFSPRLSGVKSEDEALYIAHHHHWQTLMLAAIEQEQQRYDQSITQRVEVA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

4 GO

Subcellular localization

Localization
Unknown

Gene Ontology (GO)

4
  • GO:0044237 OBSOLETE. The chemical reactions and pathways by which individual cells transform chemical substances.
  • GO:0051537 Binding to a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
  • GO:0005506 Binding to an iron (Fe) ion.
  • GO:0051213 Catalysis of the incorporation of both atoms of molecular oxygen (O2) into the substrate.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

29 records
Show feature table
Start End DB Term Name
10 444 PANTHER PTHR43756 CHOLINE MONOOXYGENASE, CHLOROPLASTIC
10 444 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
168 455 SUPERFAMILY SSF55961 Bet v1-like
166 442 Gene3D G3DSA:3.90.380.10 -
14 167 SUPERFAMILY SSF50022 ISP domain
14 167 InterPro IPR036922 Rieske [2Fe-2S] iron-sulphur domain superfamily
199 439 CDD cd08879 RHO_alpha_C_AntDO-like
85 105 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
85 105 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
106 126 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
106 126 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
193 215 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
193 215 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
34 59 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
34 59 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
152 178 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
152 178 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
64 79 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
64 79 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
50 148 ProSiteProfiles PS51296 Rieske [2Fe-2S] iron-sulfur domain profile.
50 148 InterPro IPR017941 Rieske [2Fe-2S] iron-sulphur domain
49 132 Pfam PF00355 Rieske [2Fe-2S] domain
49 132 InterPro IPR017941 Rieske [2Fe-2S] iron-sulphur domain
92 115 ProSitePatterns PS00570 Bacterial ring hydroxylating dioxygenases alpha-subunit signature.
92 115 InterPro IPR015881 Aromatic-ring-hydroxylating dioxygenase, 2Fe-2S-binding site
201 438 Pfam PF00848 Ring hydroxylating alpha subunit (catalytic domain)
201 438 InterPro IPR015879 Aromatic-ring-hydroxylating dioxygenase, alpha subunit, C-terminal domain
48 165 Gene3D G3DSA:2.102.10.10 -
48 165 InterPro IPR036922 Rieske [2Fe-2S] iron-sulphur domain superfamily

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
0.723
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Surrounding area
Pocket 2 P2Rank #2
0.362
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Surrounding area
Pocket 3 P2Rank #3
0.25
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Surrounding area
Pocket 4 P2Rank #4
0.189
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Surrounding area
Pocket 5 P2Rank #5
0.124
Likely same site as FPocket 14 7.3 Å 3 shared residues 43% of smaller site
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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 #14
0.294
Likely same site as P2Rank 5 7.3 Å 3 shared residues 43% of smaller site
Show in viewer
Surrounding area
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_A0A0H3GNW3
AlphaFold DB full sequence Viewing
ColabFold VK055_0611
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.

68 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 18 records from similar proteins
Structural ligands 18 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
15O PDB via homolog 162.6 Da · LogP 3.49 · TPSA 0.0 Open detail RCSB PDB
16M PDB via homolog Detail RCSB PDB
16N PDB via homolog Detail RCSB PDB
16Q PDB via homolog Detail RCSB PDB
16R 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
15O RCSB PDB P0A111 162.6 Da LogP 3.49 TPSA 0.0 ✓ Ro5 ✓ Clean c1ccc2c(c1)cccc2Cl
16M RCSB PDB P0A111 138.2 Da LogP 2.80 TPSA 0.0 ✓ Ro5 ✓ Clean CCSc1ccccc1
16N RCSB PDB P0A111 118.2 Da LogP 2.18 TPSA 0.0 ✓ Ro5 ✓ Clean c1ccc2c(c1)CCC2
16Q RCSB PDB P0A111 122.2 Da LogP 2.09 TPSA 9.2 ✓ Ro5 ✓ Clean CCOc1ccccc1
16R RCSB PDB P0A111 124.2 Da LogP 2.41 TPSA 0.0 ✓ Ro5 ✓ Clean CSc1ccccc1
1ON RCSB PDB P0A111 132.2 Da LogP 1.82 TPSA 17.1 ✓ Ro5 ✓ Clean c1ccc2c(c1)CCC2=O
3NT RCSB PDB P0A111 137.1 Da LogP 1.90 TPSA 43.1 ✓ Ro5 ✓ Clean Cc1cccc(c1)[N+](=O)[O-]
AN3 RCSB PDB P0A111 178.2 Da LogP 3.99 TPSA 0.0 ✓ Ro5 ✓ Clean c1ccc2cc3ccccc3cc2c1
BNL RCSB PDB A2TC87 154.2 Da LogP 3.35 TPSA 0.0 ✓ Ro5 ✓ Clean c1ccc(cc1)c2ccccc2
FES RCSB PDB Q53122 175.8 Da LogP 1.29 TPSA 0.0 ✓ Ro5 ✓ Clean S1[Fe]S[Fe]1
IAC RCSB PDB P0A111 175.2 Da LogP 1.79 TPSA 53.1 ✓ Ro5 ✓ Clean c1ccc2c(c1)c(c[nH]2)CC(=O)O
IND RCSB PDB P0A110 117.2 Da LogP 2.17 TPSA 15.8 ✓ Ro5 ✓ Clean c1ccc2c(c1)cc[nH]2
NPY RCSB PDB P0A110 128.2 Da LogP 2.84 TPSA 0.0 ✓ Ro5 ✓ Clean c1ccc2ccccc2c1
OXY RCSB PDB A2TC87 32.0 Da LogP 0.07 TPSA 34.1 ✓ Ro5 ✓ Clean O=O
PEY RCSB PDB P0A111 178.2 Da LogP 3.99 TPSA 0.0 ✓ Ro5 ✓ Clean c1ccc2c(c1)ccc3c2cccc3
PYJ RCSB PDB P0A111 106.2 Da LogP 2.25 TPSA 0.0 ✓ Ro5 ✓ Clean CCc1ccccc1
SYN RCSB PDB P0A111 104.2 Da LogP 2.33 TPSA 0.0 ✓ Ro5 ✓ Clean C=Cc1ccccc1
UNU RCSB PDB P0A111 121.1 Da LogP 0.79 TPSA 43.1 ✓ Ro5 ✓ Clean c1ccc(cc1)C(=O)N

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.