Protein target profile

VK055_4299

amino-acid N-acetyltransferase

Genome: KpATCC43816 Gene: argA AIK82844.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism 2 reactions UniProt A0A0H3GX20
Length 442
Pocket druggability 0.919
Metabolic reactions 2
Chokepoint Yes
Direct ligand evidence 0 68 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
3.0% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
51.724 Higher values support similarity to known essential genes.
DEG E-value
5.48e-163 Smaller values mean stronger essential-gene similarity.

Localization

Localization
Cytoplasmic

Structure confidence

ColabFold pLDDT
92.84 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 0.919
Structure A0A0H3GX20
Pocket Pocket 1
P2Rank 0.669
Structure A0A0H3GX20
Pocket Pocket 1
ColabFold model
FPocket 0.448 · Pocket 5
P2Rank 0.749 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 140 / 4744 genomes with a hit
Prevalence 3.0%

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 producing chokepoint reaction in Arginine biosynthesis, no isoenzyme backup detected, no human homolog detected.

Relative network centrality 0.0% more central than 0.0% of genes in this genome
Chokepoint Chokepoint gene
Catalyzed reactions

2 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.

MKERRTELVEGFRHSVPYINAHRGKTFVIMLGGEAIEHENFSNIVNDIGLLHSLGIRLVVVYGARPQIDTNLAEHHHEPVYHKQTRVTDAKTLELVKQAAGMLQLEITARLSMSLNNTPLQGAHINVVSGNFIIAQPLGVDDGVDYCHSGRIRRIDEEAIHRQLDSGAIVLMGPVAVSVTGESFNLTSEEIATQLAIKLKAEKMIGFCSSQGVYNQAGEIVSELFPNEAQARVEELEADEDYNSGTVRFLRGAVKACRSGVRRCHLISYQENGALLQELFSRDGIGTQIVMESAEQIRRATINDIGGILELISPLEQQGILVRRSREQLEMEIDKFTIIQRDNTTIACAALYPFPEEKIGEMACVAVHPDYRSSSRGEVLLERIAAQARQMGLSKLFVLTTRSIHWFQERGFTPVDIDLLPESKKQMYNYQRRSKVLMADLA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

5
  • GO:0016747 Catalysis of the transfer of an acyl group, other than amino-acyl, from one compound (donor) to another (acceptor).
  • GO:0006526 The chemical reactions and pathways resulting in the formation of arginine, 2-amino-5-(carbamimidamido)pentanoic acid.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0004042 Catalysis of the reaction: L-glutamate + acetyl-CoA = N-acetyl-L-glutamate + CoA + H+.
  • GO:0004358 Catalysis of the reaction: N2-acetyl-L-ornithine + L-glutamate = N-acetyl-L-glutamate + L-ornithine.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

25 records
Show feature table
Start End DB Term Name
295 442 Gene3D G3DSA:3.40.630.30 -
228 417 SUPERFAMILY SSF55729 Acyl-CoA N-acyltransferases (Nat)
228 417 InterPro IPR016181 Acyl-CoA N-acyltransferase
1 441 PIRSF PIRSF000423 ArgA
1 441 InterPro IPR010167 Amino-acid N-acetyltransferase
6 293 Gene3D G3DSA:3.40.1160.10 -
6 293 InterPro IPR036393 Acetylglutamate kinase-like superfamily
4 290 SUPERFAMILY SSF53633 Carbamate kinase-like
4 290 InterPro IPR036393 Acetylglutamate kinase-like superfamily
336 398 CDD cd04301 NAT_SF
8 441 NCBIfam TIGR01890 amino-acid N-acetyltransferase
8 441 InterPro IPR010167 Amino-acid N-acetyltransferase
7 289 CDD cd04237 AAK_NAGS-ABP
7 289 InterPro IPR033719 N-acetylglutamate synthase, kinase-like domain
295 442 ProSiteProfiles PS51186 Gcn5-related N-acetyltransferase (GNAT) domain profile.
295 442 InterPro IPR000182 GNAT domain
1 441 Hamap MF_01105 Amino-acid acetyltransferase [argA].
335 412 Pfam PF00583 Acetyltransferase (GNAT) family
335 412 InterPro IPR000182 GNAT domain
6 293 FunFam G3DSA:3.40.1160.10:FF:000005 Amino-acid acetyltransferase
25 267 Pfam PF00696 Amino acid kinase family
25 267 InterPro IPR001048 Aspartate/glutamate/uridylate kinase
244 441 PANTHER PTHR30602 AMINO-ACID ACETYLTRANSFERASE
244 441 InterPro IPR010167 Amino-acid N-acetyltransferase
295 441 FunFam G3DSA:3.40.630.30:FF:000009 Amino-acid acetyltransferase

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 #1
0.919
Likely same site as P2Rank 1 2.5 Å 26 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
0.669
Likely same site as FPocket 1 2.5 Å 26 shared residues 100% of smaller site
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.489
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.397
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.066
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Surrounding area
Site 5 P2Rank #5
0.056
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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_A0A0H3GX20
AlphaFold DB full sequence Viewing
ColabFold VK055_4299
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
14N PDB via homolog 220.3 Da · LogP 1.14 · TPSA 43.8 Open detail RCSB PDB
5RN PDB via homolog Detail RCSB PDB
97Q PDB via homolog Detail RCSB PDB
97T PDB via homolog Detail RCSB PDB
97W 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
14N RCSB PDB P9WQ01 220.3 Da LogP 1.14 TPSA 43.8 ✓ Ro5 ✓ Clean CN1CCN(CC1)c2ccc(cc2)C(=O)O
5RN RCSB PDB P9WQ01 159.2 Da LogP 2.37 TPSA 32.9 ✓ Ro5 ✓ Clean CC(=O)c1c[nH]c2c1cccc2
97Q RCSB PDB P9WQ01 281.2 Da LogP 3.98 TPSA 33.1 ✓ Ro5 ✓ Clean c1cc2c(cc(nc2c(c1)C(F)(F)F)C(F)(F)F)O
97T RCSB PDB P9WQ01 161.2 Da LogP 2.05 TPSA 46.3 ✓ Ro5 ✓ Clean c1ccc(c(c1)c2ccno2)O
97W RCSB PDB P9WQ01 213.2 Da LogP 2.96 TPSA 33.1 ✓ Ro5 ✓ Clean c1cc2c(ccnc2cc1C(F)(F)F)O
98K RCSB PDB P9WQ01 152.6 Da LogP 2.22 TPSA 28.7 ✓ Ro5 ✓ Clean c1ccc2c(c1)[nH]c(n2)Cl
98Q RCSB PDB P9WQ01 215.2 Da LogP 3.20 TPSA 25.0 ✓ Ro5 ✓ Clean COc1cc2cc[nH]c2cc1C(F)(F)F
98T RCSB PDB P9WQ01 278.0 Da LogP 1.78 TPSA 46.5 ✓ Ro5 ✓ Clean COC(=O)c1ccc(c(c1)I)O
98W RCSB PDB P9WQ01 210.2 Da LogP 0.97 TPSA 72.8 ✓ Ro5 ✓ Clean COC(=O)c1cc(cc(c1)O)C(=O)OC
98Z RCSB PDB P9WQ01 142.2 Da LogP 2.04 TPSA 39.6 ✓ Ro5 ✓ Clean c1ccc2c(c1)c(c[nH]2)C#N
9EQ RCSB PDB P9WQ01 152.1 Da LogP 1.30 TPSA 57.5 ✓ Ro5 ✓ Clean CC(=O)c1c(cccc1O)O
GGB RCSB PDB P9WQ01 176.2 Da LogP -1.80 TPSA 134.5 ✓ Ro5 ✓ Clean [H]/N=C(\N)/NOCC[C@@H](C(=O)O)N
MLI RCSB PDB Q01217 102.0 Da LogP -3.12 TPSA 80.3 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(=O)[O-]
NHE RCSB PDB P9WQ01 207.3 Da LogP 0.80 TPSA 66.4 ✓ Ro5 ✓ Clean C1CCC(CC1)NCCS(=O)(=O)O
NLG RCSB PDB Q6V1L5 189.2 Da LogP -0.56 TPSA 103.7 ✓ Ro5 ✓ Clean CC(=O)N[C@@H](CCC(=O)O)C(=O)O
PIY RCSB PDB P9WQ01 144.2 Da LogP 2.08 TPSA 28.7 ✓ Ro5 ✓ Clean c1ccc(cc1)c2[nH]ccn2
UOK RCSB PDB P9WQ01 186.2 Da LogP 2.24 TPSA 48.8 ✓ Ro5 ✓ Clean COc1ccc2c(c1)c(c[nH]2)CC#N
X2W RCSB PDB Q9SCL7 269.1 Da LogP -1.01 TPSA 150.2 ✓ Ro5 ✓ Clean CC(=O)N[C@@H](CCC(=O)OP(=O)(O)O)C(=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.