KpATCC43816 Protein target profile

fatty oxidation complex, alpha subunit FadJ

Accession: VK055_4790

Gene: fadJ AIK83317.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism 5 reactions UniProt A0A0H3GRA1
Length 714
Pocket druggability (P2Rank · AlphaFold DB model) 0.907
Metabolic reactions 5
Chokepoint No
Direct ligand evidence 0 58 total records
Functional annotation 0 EC 12 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
Hit
Human identity (%)
40.909 Lower values reduce human off-target concern.
Human E-value
6.32e-06
Gut microbiome similarity
2.5% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
93.81 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) 0.907
Structure A0A0H3GRA1
Pocket Pocket 1
Druggability (FPocket) 0.698
Structure A0A0H3GRA1
Pocket Pocket 9
ColabFold model
P2Rank 0.937 · Pocket 1
FPocket 0.958 · Pocket 3
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 118 / 4744 genomes with a hit
Prevalence 2.5%

Metabolic context

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

Explore metabolic network

Metabolic context: more central than 97.1% of genes in this genome.

Relative network centrality 97.1% more central than 97.1% of genes in this genome
Chokepoint Not a chokepoint
Catalyzed reactions

5 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.

MDTVSAFKLEVRADKIAVITIDAPGEKMNTLKAEFGSQVRGLIRQLRDDKSVRGVVFISAKADNFIAGADINMIARCRSAQEAEALARQGQQIMAEIHGLPIPVIAAIHGACLGGGLELALACHGRICSDDEKTRLGLPEVQLGLLPGSGGTQRLPRLIGVSTALDMMLTGKQLRPRQALKAGLVDEVVPQAILLQAAVELALKGRPTSREVPVRERVLAGPLGRHLLFQFVGKQTQRKTQGNYPAVKRILQVVENGLAHGCSSGYAEEARAFGELAMSPQSQALRSIFFASTDLKKDPGAEAGPGPLRSVAVLGGGLMGGGIAYVTACKGGLPVRIKDIQPRGINHALKYSWDLLNKQVRQRRLRPVERDRQMALISGTTDYQGFAHRDVVIEAVFEDLALKQRMVSEVEQYGGPQTIFASNTSSLPIGDIAAHASRPGQVIGLHFFSPVEKMPLVEVIPHKGTDPQTIATVVQLAKRQGKTPIVVADKAGFYVNRILAPYINEAMRLLVEGEPIEVIDNALVKFGFPVGPIQLLDEVGIDTGTKIIPVLEGAFGERFSPPANIIDAILKDDRKGRKNNRGFYLYETKGRKSKKRPDPAVYPLLGIGRPQSRLSAQQVAERCVMMMLNEAARCFDEQIIRSARDGDIGAVFGIGFPPFLGGPFRYMDTIGAGEVAAILQRLAAQFGPRFTPCDTLLRMAEQGTTFWPADERLT

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

12 GO

Subcellular localization

Localization
Cytoplasmic

Gene Ontology (GO)

12
  • GO:0003857 Catalysis of the reaction: a (3S)-3-hydroxyacyl-CoA + NAD+ = a 3-oxoacyl-CoA + NADH + H+.
  • GO:0006631 The chemical reactions and pathways involving fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.
  • GO:0016491 Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
  • GO:0006635 A fatty acid oxidation process that results in the complete oxidation of a long-chain fatty acid. Fatty acid beta-oxidation begins with the addition of coenzyme A to a fatty acid, and occurs by successive cycles of reactions during each of which the fatty acid is shortened by a two-carbon fragment removed as acetyl coenzyme A; the cycle continues until only two or three carbons remain (as acetyl-CoA or propionyl-CoA respectively).
  • GO:0004300 Catalysis of the reaction: a 3-hydroxy-fatty acyl-CoA = a enoyl-CoA + H2O. This reaction usually occurs in the reverse direction, leading to the reduction of the double bound of enoyl-CoA in position 2 or 3. Specific reactions catalyzed include: a 4-saturated-(3S)-3-hydroxyacyl-CoA = a (3E)-enoyl-CoA + H2O and a (3S)-3-hydroxyacyl-CoA = a (2E)-enoyl-CoA + H2O.
  • GO:0051287 Binding to nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.
  • GO:0016616 Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group acts as a hydrogen or electron donor and reduces NAD+ or NADP.
  • GO:0070403 Binding to the oxidized form, NAD, of nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions.
  • GO:0008692 Catalysis of the reaction: (S)-3-hydroxybutanoyl-CoA = (R)-3-hydroxybutanoyl-CoA.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0018812 Catalysis of the reaction: a 3-hydroxy-fatty acyl-CoA = a (2E)-enoyl-CoA + H2O.
  • GO:0016509 Catalysis of the reaction: a long-chain (3S)-3-hydroxy fatty acyl-CoA + NAD+ = a long-chain 3-oxo-fatty acyl-CoA + H+ + NADH. A long-chain fatty acid has an aliphatic tail containing 13 to 22 carbons.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

30 records
Show feature table
Start End DB Term Name
308 494 Gene3D G3DSA:3.40.50.720 -
14 202 Pfam PF00378 Enoyl-CoA hydratase/isomerase
14 202 InterPro IPR001753 Enoyl-CoA hydratase/isomerase
489 514 ProSitePatterns PS00067 3-hydroxyacyl-CoA dehydrogenase signature.
489 514 InterPro IPR006180 3-hydroxyacyl-CoA dehydrogenase, conserved site
4 300 SUPERFAMILY SSF52096 ClpP/crotonase
4 300 InterPro IPR029045 ClpP/crotonase-like domain superfamily
12 204 CDD cd06558 crotonase-like
3 303 Gene3D G3DSA:3.90.226.10 -
492 586 Pfam PF00725 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain
492 586 InterPro IPR006108 3-hydroxyacyl-CoA dehydrogenase, C-terminal
619 703 Pfam PF00725 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain
619 703 InterPro IPR006108 3-hydroxyacyl-CoA dehydrogenase, C-terminal
495 710 Gene3D G3DSA:1.10.1040.50 -
4 707 PANTHER PTHR43612 TRIFUNCTIONAL ENZYME SUBUNIT ALPHA
495 702 FunFam G3DSA:1.10.1040.50:FF:000003 Fatty acid oxidation complex subunit alpha
308 494 FunFam G3DSA:3.40.50.720:FF:000009 Fatty oxidation complex, alpha subunit
3 304 FunFam G3DSA:3.90.226.10:FF:000011 Fatty acid oxidation complex subunit alpha
1 707 Hamap MF_01617 Fatty acid oxidation complex subunit alpha [fadJ].
1 707 InterPro IPR012802 Fatty oxidation complex, alpha subunit FadJ
310 489 Pfam PF02737 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain
310 489 InterPro IPR006176 3-hydroxyacyl-CoA dehydrogenase, NAD binding
492 601 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like
492 601 InterPro IPR008927 6-phosphogluconate dehydrogenase-like, C-terminal domain superfamily
309 489 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains
309 489 InterPro IPR036291 NAD(P)-binding domain superfamily
6 707 NCBIfam TIGR02440 fatty acid oxidation complex subunit alpha FadJ
6 707 InterPro IPR012802 Fatty oxidation complex, alpha subunit FadJ
615 707 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like
615 707 InterPro IPR008927 6-phosphogluconate dehydrogenase-like, C-terminal 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
0.907
Likely same site as FPocket 12 5.7 Å 15 shared residues 100% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.874
Likely same site as FPocket 9 6.2 Å 12 shared residues 86% of smaller site
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Surrounding area
Pocket 3 P2Rank #3
0.269
Likely same site as FPocket 9 7.5 Å 4 shared residues 36% of smaller site
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Surrounding area
Pocket 4 P2Rank #4
0.204
Likely same site as FPocket 38 2.6 Å 15 shared residues 100% of smaller site
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Surrounding area
Pocket 5 P2Rank #5
0.159
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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 #9
0.698
Likely same site as P2Rank 2 6.2 Å 12 shared residues 86% of smaller site
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Surrounding area
Pocket 2 FPocket #38
0.498 Unusual size
Likely same site as P2Rank 4 2.6 Å 15 shared residues 100% of smaller site
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Surrounding area
Pocket 3 FPocket #12
0.339
Likely same site as P2Rank 1 5.7 Å 15 shared residues 100% of smaller site
Show in viewer
Surrounding area
Residue sets
UniProt: Site:118-118 Important for catalytic activity
UniProt: Site:140-140 Important for catalytic activity
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_A0A0H3GRA1
AlphaFold DB full sequence Viewing
ColabFold VK055_4790
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.

58 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 8 records from similar proteins
Structural ligands 8 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
3H9 PDB via homolog 877.7 Da · LogP -3.31 · TPSA 395.2 Open detail RCSB PDB
3HC PDB via homolog Detail RCSB PDB
CAA PDB via homolog Detail RCSB PDB
HSC PDB via homolog Detail RCSB PDB
N8E 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
3H9 RCSB PDB P07896 877.7 Da LogP -3.31 TPSA 395.2 3 viol. ✓ Clean CCC[C@@H](CC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)…
3HC RCSB PDB Q16836 853.6 Da LogP -1.56 TPSA 383.9 3 viol. ✓ Clean CC(CC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)CO[P@](…
CAA RCSB PDB C4IEM5 851.6 Da LogP -1.36 TPSA 380.7 3 viol. ✓ Clean CC(=O)CC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)CO[P…
HSC RCSB PDB P07896 933.8 Da LogP -1.75 TPSA 395.2 3 viol. ✓ Clean CCCCCCC[C@@H](CC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C…
N8E RCSB PDB P28793 350.5 Da LogP 2.42 TPSA 66.4 ✓ Ro5 ✓ Clean CCCCCCCCOCCOCCOCCOCCOCCO
T1G RCSB PDB P07896 863.6 Da LogP -3.85 TPSA 395.2 3 viol. ✓ Clean C[C@@H]([C@H](C)O)C(=O)SCCNC(=O)CCNC(=O)[C@@H](…
TC6 RCSB PDB P07896 859.6 Da LogP -2.51 TPSA 374.9 2 viol. ✓ Clean CCC/C=C/C(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)COP…
ZOZ RCSB PDB P07896 935.8 Da LogP 0.98 TPSA 380.7 3 viol. ✓ Clean CCCCCCCC(=O)CC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(…

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.