KpKP13 Protein target profile

UDP-N-acetylglucosamine 1-carboxyvinyltransferase

Accession: KP13_01121

Gene: AHE42485.1 murA 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GYZ6
Length 419
Pocket druggability (P2Rank · AlphaFold DB model) 0.952
Direct ligand evidence 0 74 total records
Functional annotation 1 EC 9 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
12.8% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
96.35 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) 0.952
Structure A0A0H3GYZ6
Pocket Pocket 1
Druggability (FPocket) 0.245
Structure A0A0H3GYZ6
Pocket Pocket 22
ColabFold model
P2Rank 0.947 · Pocket 1
FPocket 0.161 · Pocket 5
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 609 / 4744 genomes with a hit
Prevalence 12.8%

Sequence

Primary amino-acid sequence viewer.

MDKFRVQGPTRLQGEVTISGAKNAALPILFSALLAEEPVEIQNVPKLKDIDTTMKLLSQLGAKVERNGSVWIDAGPVDVFCAPYDLVKTMRASIWALGPLVARFGQGQVSLPGGCAIGARPVDLHISGLEQLGAEIKLEEGYVKASVSGRLKGAHIVMDKVSVGATVTIMSAATLAEGTTIIENAAREPEIVDTANFLNALGAKITGQGSDRITIEGVQRLGGGVYRVLPDRIETGTFLVAAAISGGKILCRNAQPDTLDAVLAKLRDAGADIETGEDWISLDMHGNRPKAVNVRTAPHPGFPTDMQAQFTLLNLVAEGTGVITETIFENRFMHIPELIRMGAHAEIESNTAICHGVKQLSGAQVMATDLRASASLVLAGCIAEGTTIVDRIYHIDRGYERIEDKLQALGANIQRVKGE

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 9 GO

Subcellular localization

Localization
Cytoplasmic

Enzyme Commission (EC)

1

Gene Ontology (GO)

9
  • GO:0008760 Catalysis of the reaction: phosphoenolpyruvate + UDP-N-acetyl-alpha-D-glucosamine = phosphate + UDP-N-acetyl-3-O-(1-carboxyvinyl)-D-glucosamine.
  • GO:0019277 The chemical reactions and pathways resulting in the formation of UDP-N-acetylgalactosamine, a substance composed of N-acetylgalactosamine, a common structural unit of oligosaccharides, in glycosidic linkage with uridine diphosphate.
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0016765 Catalysis of the transfer of an alkyl or aryl (but not methyl) group from one compound (donor) to another (acceptor).
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0051301 The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
  • GO:0071555 A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
  • GO:0009252 The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls and consisting of long glycan strands of alternating residues of beta-(1,4) linked N-acetylglucosamine and N-acetylmuramic acid, cross-linked by short peptides.
  • GO:0008360 Any process that modulates the surface configuration of a cell.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

17 records
Show feature table
Start End DB Term Name
2 417 PANTHER PTHR43783 UDP-N-ACETYLGLUCOSAMINE 1-CARBOXYVINYLTRANSFERASE
1 418 SUPERFAMILY SSF55205 EPT/RTPC-like
1 418 InterPro IPR013792 RNA 3'-terminal phosphate cyclase/enolpyruvate transferase, alpha/beta
5 414 Gene3D G3DSA:3.65.10.10 Enolpyruvate transferase domain
5 414 InterPro IPR036968 Enolpyruvate transferase domain superfamily
6 406 Pfam PF00275 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase)
6 406 InterPro IPR001986 Enolpyruvate transferase domain
1 416 Hamap MF_00111 UDP-N-acetylglucosamine 1-carboxyvinyltransferase [murA].
1 416 InterPro IPR005750 UDP-N-acetylglucosamine 1-carboxyvinyltransferase
399 419 Coils Coil Coil
214 414 FunFam G3DSA:3.65.10.10:FF:000002 UDP-N-acetylglucosamine 1-carboxyvinyltransferase
12 409 CDD cd01555 UdpNAET
12 409 InterPro IPR005750 UDP-N-acetylglucosamine 1-carboxyvinyltransferase
1 415 NCBIfam TIGR01072 UDP-N-acetylglucosamine 1-carboxyvinyltransferase
1 415 InterPro IPR005750 UDP-N-acetylglucosamine 1-carboxyvinyltransferase
21 228 Gene3D G3DSA:3.65.10.10 Enolpyruvate transferase domain
21 228 InterPro IPR036968 Enolpyruvate transferase 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
0.952
Likely same site as FPocket 22 2.2 Å 34 shared residues 97% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.027
Show in viewer
Surrounding area
Pocket 3 P2Rank #3
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 #22
0.245 Unusual size
Likely same site as P2Rank 1 2.2 Å 34 shared residues 97% of smaller site
Show in viewer
Surrounding area
Residue sets
UniProt: Active site:115-115 Proton donor
UniProt: Binding site:120-124
UniProt: Binding site:160-163
UniProt: Binding site:22-23
UniProt: Binding site:305-305
UniProt: Binding site:327-327
UniProt: Binding site:91-91
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_A0A0H3GYZ6
AlphaFold DB full sequence Viewing
ColabFold KP13_01121
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.

74 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 24 records from similar proteins
Structural ligands 18 0 loaded crystals
Measured bioactivity 6 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
0V5 PDB via homolog 170.1 Da · LogP -0.43 · TPSA 104.1 Open detail RCSB PDB
2AN PDB via homolog Detail RCSB PDB
EPU PDB via homolog Detail RCSB PDB
EPZ PDB via homolog Detail RCSB PDB
FFQ 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
0V5 RCSB PDB Q88P88 170.1 Da LogP -0.43 TPSA 104.1 ✓ Ro5 ✓ Clean C[C@H](C(=O)O)OP(=O)(O)O
2AN RCSB PDB P33038 299.4 Da LogP 3.83 TPSA 66.4 ✓ Ro5 ✓ Clean c1ccc(cc1)Nc2cccc3c2c(ccc3)S(=O)(=O)O
EPU RCSB PDB P33038 677.4 Da LogP -4.03 TPSA 332.2 3 viol. ✓ Clean CC(=O)N[C@@H]1[C@H]([C@@H]([C@H](O[C@@H]1O[P@@]…
EPZ RCSB PDB P33038 679.4 Da LogP -4.15 TPSA 332.2 3 viol. ✓ Clean C[C@H](C(=O)O)O[C@@H]1[C@H]([C@H](O[C@@H]([C@H]…
FFQ RCSB PDB P33038 140.1 Da LogP -0.11 TPSA 77.8 ✓ Ro5 ✓ Clean CC[C@H](O)P(=O)(O)O
GG6 RCSB PDB P45025 156.1 Da LogP -1.14 TPSA 98.0 ✓ Ro5 ✓ Clean C[C@@H]([C@@H](O)P(=O)(O)O)O
HAI RCSB PDB P33038 100.2 Da LogP 0.56 TPSA 27.6 ✓ Ro5 ✓ Clean C1CCC(CC1)[NH3+]
MOE RCSB PDB P33038 75.1 Da LogP -1.01 TPSA 32.3 ✓ Ro5 ✓ Clean COCC[O-]
PG0 RCSB PDB P33038 120.1 Da LogP -0.36 TPSA 38.7 ✓ Ro5 ✓ Clean COCCOCCO
PO3 RCSB PDB P0A749 79.0 Da LogP -1.64 TPSA 63.2 ✓ Ro5 ✓ Clean [O-][P-](=O)[O-]
TAV RCSB PDB P33038 662.7 Da LogP 4.56 TPSA 184.4 1 viol. ✓ Clean CN([C@@H](CC(=O)O)C(=O)O)C(=O)c1cc(ccc1NS(=O)(=…
TET RCSB PDB P0A749 793.4 Da LogP -4.77 TPSA 398.9 3 viol. ✓ Clean CC(=O)N[C@@H]1[C@H]([C@@H]([C@H](O[C@@H]1O[P@@]…
TR9 RCSB PDB P33038 156.1 Da LogP -0.28 TPSA 74.6 ✓ Ro5 ✓ Clean CC1=C(C(=O)C[C@@H](C1=O)O)O
UD1 RCSB PDB P33038 607.4 Da LogP -4.65 TPSA 305.9 3 viol. ✓ Clean CC(=O)N[C@@H]1[C@H]([C@@H]([C@H](O[C@@H]1O[P@@]…
UD2 RCSB PDB P33038 607.4 Da LogP -4.65 TPSA 305.9 3 viol. ✓ Clean CC(=O)N[C@@H]1[C@H]([C@H]([C@H](O[C@@H]1O[P@@](…
UDA RCSB PDB P33038 775.4 Da LogP -4.72 TPSA 398.9 3 viol. ✓ Clean CC(=O)N[C@@H]1[C@H]([C@@H]([C@H](O[C@@H]1O[P@@]…
UPG RCSB PDB P33038 566.3 Da LogP -4.79 TPSA 297.0 3 viol. ✓ Clean C1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)C…
UPN RCSB PDB P33038 677.4 Da LogP -4.03 TPSA 332.2 3 viol. ✓ Clean CC(=O)N[C@@H]1[C@H]([C@H]([C@H](O[C@@H]1O[P@](=…

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.