KpATCC43816 Protein target profile

N-acetyl-gamma-glutamyl-phosphate reductase

Accession: VK055_3229

Gene: argC AIK81790.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism 1 reaction UniProt A0A0H3GH05
Length 334
Pocket druggability (P2Rank · AlphaFold DB model) 0.937
Metabolic reactions 1
Chokepoint Yes
Direct ligand evidence 0 58 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
3.1% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
98.43 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) 0.937
Structure A0A0H3GH05
Pocket Pocket 1
Druggability (FPocket) 0.239
Structure A0A0H3GH05
Pocket Pocket 11
ColabFold model
P2Rank 0.919 · Pocket 1
FPocket 0.416 · Pocket 16
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 147 / 4744 genomes with a hit
Prevalence 3.1%

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 Arginine biosynthesis, no isoenzyme backup detected, more central than 91.1% of genes in this genome, no human homolog detected.

Relative network centrality 91.1% more central than 91.1% of genes in this genome
Chokepoint Chokepoint gene
Catalyzed reaction

1 reaction 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.

MLNTLIVGASGYAGAELVTYINRHPHMNITALTVSAQSNDAGKLISDLHPQLKGIVDMPLQPMSDISEFSAGVDVVFLATAHEVSHDLAPQFLAAGCVVFDLSGAFRVNDGAFYEKYYGFTHRHPDLLKQAVYGLAEWSADALKDAQLIAVPGCYPTAAQLSLKPLIEANLLDLNQWPVINATSGVSGAGRKAAIGNSFCEVSLQPYGIFNHRHQPEIASHLGAKVIFTPHLGNFKRGILETITCRLKPGVGHAQIAAVYQQAYADKPLVRLYDKGVPALKSVEGLPFCDIGFAVQDDHLIVVTAEDNLLKGAAAQAVQCANIRFGFAETQSLI

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Subcellular localization

Localization
Cytoplasmic

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0016620 Catalysis of an oxidation-reduction (redox) reaction in which an aldehyde or ketone (oxo) group acts as a hydrogen or electron donor and reduces NAD or NADP.
  • 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:0006526 The chemical reactions and pathways resulting in the formation of arginine, 2-amino-5-(carbamimidamido)pentanoic acid.
  • GO:0046983 The formation of a protein dimer, a macromolecular structure consists of two noncovalently associated identical or nonidentical subunits.
  • GO:0008652 The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
  • GO:0070401 Binding to the oxidized form, NADP+, of nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions.
  • GO:0003942 Catalysis of the reaction: N-acetyl-L-glutamate 5-semialdehyde + NADP+ + phosphate = N-acetyl-5-glutamyl phosphate + NADPH + H+.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

20 records
Show feature table
Start End DB Term Name
153 312 Gene3D G3DSA:3.30.360.10 Dihydrodipicolinate Reductase; domain 2
3 333 NCBIfam TIGR01850 N-acetyl-gamma-glutamyl-phosphate reductase
3 333 InterPro IPR000706 N-acetyl-gamma-glutamyl-phosphate reductase, type 1
1 171 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains
1 171 InterPro IPR036291 NAD(P)-binding domain superfamily
6 330 Gene3D G3DSA:3.40.50.720 -
2 334 Hamap MF_00150 N-acetyl-gamma-glutamyl-phosphate reductase [argC].
2 334 InterPro IPR000706 N-acetyl-gamma-glutamyl-phosphate reductase, type 1
163 311 Pfam PF02774 Semialdehyde dehydrogenase, dimerisation domain
163 311 InterPro IPR012280 Semialdehyde dehydrogenase, dimerisation domain
149 165 ProSitePatterns PS01224 N-acetyl-gamma-glutamyl-phosphate reductase active site.
149 165 InterPro IPR023013 N-acetyl-gamma-glutamyl-phosphate reductase, active site
154 308 SUPERFAMILY SSF55347 Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
3 333 PANTHER PTHR32338 N-ACETYL-GAMMA-GLUTAMYL-PHOSPHATE REDUCTASE, CHLOROPLASTIC-RELATED-RELATED
152 308 FunFam G3DSA:3.30.360.10:FF:000014 N-acetyl-gamma-glutamyl-phosphate reductase
3 146 SMART SM00859 Semialdhyde_dh_3
3 146 InterPro IPR000534 Semialdehyde dehydrogenase, NAD-binding
5 146 Pfam PF01118 Semialdehyde dehydrogenase, NAD binding domain
5 146 InterPro IPR000534 Semialdehyde dehydrogenase, NAD-binding
4 164 FunFam G3DSA:3.40.50.720:FF:000117 N-acetyl-gamma-glutamyl-phosphate reductase

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.

Download VMD script Full viewer

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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
0.937
Show in viewer
Surrounding area
Pocket 2 P2Rank #2
0.009
Show in viewer
Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #11
0.239
Show in viewer
Surrounding area
Residue sets
UniProt: Active site:154-154
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_A0A0H3GH05
AlphaFold DB full sequence Viewing
ColabFold VK055_3229
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
AZI PDB via homolog 42.0 Da · LogP 0.87 · TPSA 58.7 Open detail RCSB PDB
BTB PDB via homolog Detail RCSB PDB
MLA PDB via homolog Detail RCSB PDB
MLT PDB via homolog Detail RCSB PDB
MYI 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
AZI RCSB PDB Q5SH26 42.0 Da LogP 0.87 TPSA 58.7 ✓ Ro5 Alert [N-]=[N+]=[N-]
BTB RCSB PDB P9WPZ9 209.2 Da LogP -3.01 TPSA 104.4 ✓ Ro5 ✓ Clean C(CO)N(CCO)C(CO)(CO)CO
MLA RCSB PDB Q57658 104.1 Da LogP -0.45 TPSA 74.6 ✓ Ro5 ✓ Clean C(C(=O)O)C(=O)O
MLT RCSB PDB P59310 134.1 Da LogP -1.09 TPSA 94.8 ✓ Ro5 ✓ Clean C([C@H](C(=O)O)O)C(=O)O
MYI RCSB PDB P9WPZ9 205.2 Da LogP 1.80 TPSA 62.3 ✓ Ro5 ✓ Clean COc1ccc2c(c1)c(c[nH]2)CC(=O)O
UJQ RCSB PDB P9WPZ9 226.2 Da LogP 3.01 TPSA 46.5 ✓ Ro5 ✓ Clean c1ccc2c(c1)C(c3ccccc3O2)C(=O)O
UKE RCSB PDB P9WPZ9 193.2 Da LogP 1.53 TPSA 72.6 ✓ Ro5 ✓ Clean COc1ccc2c(c1)nc(o2)C(=O)O
UKK RCSB PDB P9WPZ9 186.2 Da LogP 2.46 TPSA 48.1 ✓ Ro5 Alert c1ccc(cc1)Oc2ccc(cn2)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.