KpKP13 Protein target profile

Chorismate synthase

Accession: KP13_01038

Gene: aroC AHE43434.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GWE8
Length 361
Pocket druggability (P2Rank · AlphaFold DB model) 0.946
Direct ligand evidence 0 64 total records
Functional annotation 1 EC 6 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
9.9% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
94.25 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) 0.946
Structure A0A0H3GWE8
Pocket Pocket 1
Druggability (FPocket) 0.319
Structure A0A0H3GWE8
Pocket Pocket 1
ColabFold model
P2Rank 0.94 · Pocket 1
FPocket 0.446 · Pocket 7
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 471 / 4744 genomes with a hit
Prevalence 9.9%

Sequence

Primary amino-acid sequence viewer.

MAGNTIGQLFRVTTFGESHGLALGCIVDGVPPGIPLTEADLQHDLDRRRPGTSRYTTQRREPDQVKILSGVFEGVTTGTSIGLLIENTDQRSQDYGAIKDLFRPGHADYTYEQKYGLRDYRGGGRSSARETAMRVAAGAIAKKYLAVKFGIVIRGCLTQMGNIPLAIKDWDQVEQNPFFCPDPDKIDALDELMRGLKKEGDSIGAKVTVVADGVPPGLGEPVFDRLDADIAHALMSINAVKGVEIGDGFEVVKLRGSENRDEITKAGFQSNHAGGILGGISSGQQIVANIALKPTSSITVPGHTINRFGEEVEMITKGRHDPCVGIRAVPIAEAMLAIVLMDHFMRQRAQNGDVTTTIPRW

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 6 GO

Subcellular localization

Localization
Cytoplasmic

Enzyme Commission (EC)

1

Gene Ontology (GO)

6
  • GO:0004107 Catalysis of the reaction: 5-O-(1-carboxyvinyl)-3-phosphoshikimate = chorismate + phosphate.
  • GO:0009073 The chemical reactions and pathways resulting in the formation of aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0010181 Binding to flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
  • GO:0008652 The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
  • GO:0009423 The chemical reactions and pathways resulting in the formation of the unsymmetrical ether derived from phosphoenolpyruvate and 5-phosphoshikimic acid formed as an intermediate in the biosynthesis of aromatic amino acids and many other compounds.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

23 records
Show feature table
Start End DB Term Name
10 345 Pfam PF01264 Chorismate synthase
10 345 InterPro IPR000453 Chorismate synthase
10 350 NCBIfam TIGR00033 chorismate synthase
10 350 InterPro IPR000453 Chorismate synthase
124 140 ProSitePatterns PS00788 Chorismate synthase signature 2.
124 140 InterPro IPR020541 Chorismate synthase, conserved site
4 354 PANTHER PTHR21085 CHORISMATE SYNTHASE
4 354 InterPro IPR000453 Chorismate synthase
1 361 FunFam G3DSA:3.60.150.10:FF:000001 Chorismate synthase
10 343 CDD cd07304 Chorismate_synthase
10 343 InterPro IPR000453 Chorismate synthase
10 352 Hamap MF_00300 Chorismate synthase [aroC].
10 352 InterPro IPR000453 Chorismate synthase
16 31 ProSitePatterns PS00787 Chorismate synthase signature 1.
16 31 InterPro IPR020541 Chorismate synthase, conserved site
1 360 Gene3D G3DSA:3.60.150.10 Chorismate synthase AroC
1 360 InterPro IPR035904 Chorismate synthase AroC superfamily
3 360 PIRSF PIRSF001456 Chorismate_synth
3 360 InterPro IPR000453 Chorismate synthase
319 335 ProSitePatterns PS00789 Chorismate synthase signature 3.
319 335 InterPro IPR020541 Chorismate synthase, conserved site
4 352 SUPERFAMILY SSF103263 Chorismate synthase, AroC
4 352 InterPro IPR035904 Chorismate synthase AroC 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
0.946
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Surrounding area
Pocket 2 P2Rank #2
0.092
Likely same site as FPocket 9 1.0 Å 9 shared residues 90% of smaller site
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Surrounding area
Pocket 3 P2Rank #3
0.048
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Surrounding area
Pocket 4 P2Rank #4
0.021
Likely same site as FPocket 1 1.3 Å 13 shared residues 100% 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 #1
0.319 Unusual size
Likely same site as P2Rank 4 1.3 Å 13 shared residues 100% of smaller site
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Surrounding area
Pocket 2 FPocket #19
0.225
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Surrounding area
Pocket 3 FPocket #9
0.217
Likely same site as P2Rank 2 1.0 Å 9 shared residues 90% of smaller site
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Surrounding area
Pocket 4 FPocket #24
0.211
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Surrounding area
Residue sets
UniProt: Binding site:125-127
UniProt: Binding site:238-239
UniProt: Binding site:278-278
UniProt: Binding site:293-297
UniProt: Binding site:319-319
UniProt: Binding site:48-48
UniProt: Binding site:54-54
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_A0A0H3GWE8
AlphaFold DB full sequence Viewing
ColabFold KP13_01038
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.

64 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 14 records from similar proteins
Structural ligands 3 0 loaded crystals
Measured bioactivity 11 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
EPS PDB via homolog 324.2 Da · LogP -0.78 · TPSA 170.8 Open detail RCSB PDB
NCA PDB via homolog Detail RCSB PDB
TLA PDB via homolog Detail RCSB PDB
CHEMBL335191 ChEMBL via homolog · pchembl 6.66 (~218.8 nM) Detail ChEMBL
CHEMBL135231 ChEMBL via homolog · pchembl 6.50 (~316.2 nM) Detail ChEMBL

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
EPS RCSB PDB P0A2Y6 324.2 Da LogP -0.78 TPSA 170.8 ✓ Ro5 ✓ Clean C=C(C(=O)O)O[C@@H]1CC(=C[C@H]([C@H]1O)OP(=O)(O)…
NCA RCSB PDB P9WPY1 122.1 Da LogP 0.18 TPSA 56.0 ✓ Ro5 ✓ Clean c1cc(cnc1)C(=O)N
TLA RCSB PDB D0C7F3 150.1 Da LogP -2.12 TPSA 115.1 ✓ Ro5 ✓ Clean [C@@H]([C@H](C(=O)O)O)(C(=O)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.

Cross-references

External database identifiers for this protein, its structures, ligands, and metabolic reactions.