Protein target profile

VK055_2367

acetyl-CoA carboxylase, carboxyl transferase, alpha subunit

Genome: KpATCC43816 Gene: accA AIK80964.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism 3 reactions UniProt A0A0H3GIK3
Length 319
Pocket druggability 0.968
Metabolic reactions 3
Chokepoint Yes
Direct ligand evidence 0 54 total records
Functional annotation 1 EC 7 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 (%)
28.75 Lower values reduce human off-target concern.
Human E-value
3.73e-08
Gut microbiome similarity
23.6% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
96.552 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
95.49 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 0.968
Structure A0A0H3GIK3
Pocket Pocket 2
P2Rank 0.199
Structure A0A0H3GIK3
Pocket Pocket 1
ColabFold model
FPocket 0.906 · Pocket 3
P2Rank 0.126 · Pocket 1
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 1121 / 4744 genomes with a hit
Prevalence 23.6%

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 in Aflatoxin biosynthesis, more central than 98.3% of genes in this genome.

Relative network centrality 98.3% more central than 98.3% of genes in this genome
Chokepoint Chokepoint gene
Catalyzed reactions

3 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.

MSLNFLDFEQPIAELEAKIDSLTAVSRQDEKLDINIDEEVHRLREKSVELTRKIFADLGAWQVAQLARHPRRPYTLDYVRLAFDEFDELAGDRAFADDKAIVGGIARLDGRPVMIIGHQKGRETKEKIRRNFGMPAPEGYRKALRLMEMAERFKMPIITFIDTPGAYPGVGAEERGQSEAIARNLREMSRLSVPVICTVIGEGGSGGALAIGVGDKVNMLQYSTYSVISPEGCASILWKSADKAPLAAEAMGIIAPRLKELKLIDSIVPEPLGGAHRNPEAMAASLKAQLLADLADLDLLSEEELLNRRYQRLMSYGYA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • GO:0016743 Catalysis of the transfer of a carboxyl- or carbamoyl group from one compound (donor) to another (acceptor).
  • GO:0009317 A protein complex that catalyzes the first step in long-chain fatty acid biosynthesis. For example, in E. coli the complex is heterohexameric and composed of biotin carbonyl carrier protein, biotin carboxylase and the acetate CoA-transferase complex.
  • GO:0003989 Catalysis of the reaction: ATP + acetyl-CoA + HCO3- = ADP + phosphate + malonyl-CoA.
  • GO:0016874 Catalysis of the joining of two molecules, or two groups within a single molecule, using the energy from the hydrolysis of ATP, a similar triphosphate, or a pH gradient.
  • GO:0006633 The chemical reactions and pathways resulting in the formation of a fatty acid, any of the aliphatic monocarboxylic acids that can be liberated by hydrolysis from naturally occurring fats and oils. Fatty acids are predominantly straight-chain acids of 4 to 24 carbon atoms, which may be saturated or unsaturated; branched fatty acids and hydroxy fatty acids also occur, and very long chain acids of over 30 carbons are found in waxes.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:2001295 The chemical reactions and pathways resulting in the formation of malonyl-CoA, the S-malonyl derivative of coenzyme A.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

27 records
Show feature table
Start End DB Term Name
6 151 Pfam PF03255 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit
6 151 InterPro IPR001095 Acetyl-CoA carboxylase, alpha subunit
2 319 NCBIfam TIGR00513 acetyl-CoA carboxylase carboxyl transferase subunit alpha
2 319 InterPro IPR001095 Acetyl-CoA carboxylase, alpha subunit
4 319 Gene3D G3DSA:3.90.226.10 -
35 296 ProSiteProfiles PS50989 Acetyl-coenzyme A (CoA) carboxyltransferase C-terminal domain profile.
35 296 InterPro IPR011763 Acetyl-coenzyme A carboxyltransferase, C-terminal
12 32 Coils Coil Coil
5 319 Hamap MF_00823 Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha [accA].
5 319 InterPro IPR001095 Acetyl-CoA carboxylase, alpha subunit
5 317 PANTHER PTHR42853 ACETYL-COENZYME A CARBOXYLASE CARBOXYL TRANSFERASE SUBUNIT ALPHA
5 317 InterPro IPR001095 Acetyl-CoA carboxylase, alpha subunit
5 318 SUPERFAMILY SSF52096 ClpP/crotonase
5 318 InterPro IPR029045 ClpP/crotonase-like domain superfamily
200 209 PRINTS PR01069 Acetyl-CoA carboxylase carboxyl transferase alpha subunit signature
200 209 InterPro IPR001095 Acetyl-CoA carboxylase, alpha subunit
156 169 PRINTS PR01069 Acetyl-CoA carboxylase carboxyl transferase alpha subunit signature
156 169 InterPro IPR001095 Acetyl-CoA carboxylase, alpha subunit
116 134 PRINTS PR01069 Acetyl-CoA carboxylase carboxyl transferase alpha subunit signature
116 134 InterPro IPR001095 Acetyl-CoA carboxylase, alpha subunit
172 185 PRINTS PR01069 Acetyl-CoA carboxylase carboxyl transferase alpha subunit signature
172 185 InterPro IPR001095 Acetyl-CoA carboxylase, alpha subunit
137 153 PRINTS PR01069 Acetyl-CoA carboxylase carboxyl transferase alpha subunit signature
137 153 InterPro IPR001095 Acetyl-CoA carboxylase, alpha subunit
91 102 PRINTS PR01069 Acetyl-CoA carboxylase carboxyl transferase alpha subunit signature
91 102 InterPro IPR001095 Acetyl-CoA carboxylase, alpha subunit
4 319 FunFam G3DSA:3.90.226.10:FF:000008 Acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha

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
0.968
Likely same site as P2Rank 1 2.2 Å 11 shared residues 100% 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
0.199
Likely same site as FPocket 2 2.2 Å 11 shared residues 100% of smaller site
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Surrounding area
Site 2 P2Rank #2
0.079
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Surrounding area
Site 3 P2Rank #3
0.038
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Surrounding area
Site 4 P2Rank #4
0.018
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Surrounding area
Site 5 P2Rank #5
0.011
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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_A0A0H3GIK3
AlphaFold DB full sequence Viewing
ColabFold VK055_2367
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.

54 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 4 records from similar proteins
Structural ligands 4 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
1VU PDB via homolog 823.6 Da · LogP -0.93 · TPSA 363.6 Open detail RCSB PDB
BTI PDB via homolog Detail RCSB PDB
HXC PDB via homolog Detail RCSB PDB
YT5 PDB via homolog Detail RCSB PDB
ZINC34603442 ZINC proposed compound · Tanimoto 0.703 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
1VU RCSB PDB Q9X4K7 823.6 Da LogP -0.93 TPSA 363.6 3 viol. ✓ Clean CCC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)COP(=O)(O…
BTI RCSB PDB C5AP75 228.3 Da LogP 0.91 TPSA 58.2 ✓ Ro5 ✓ Clean C1[C@H]2[C@@H]([C@@H](S1)CCCCC=O)NC(=O)N2
HXC RCSB PDB A0ACI9 865.7 Da LogP 0.25 TPSA 363.6 3 viol. ✓ Clean CCCCCC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)CO[P@@…
YT5 RCSB PDB Q2FXM7 453.5 Da LogP 1.98 TPSA 121.4 ✓ Ro5 ✓ Clean C/C=C/C=C/C(=O)N[C@@H](CC(=O)N[C@@H](C(C)C)C(=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.