Protein target profile

KP13_01290

Aspartate carbamoyltransferase

Genome: KpKP13 Gene: AHE46644.1 pyrB 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GMI1
Length 311
Pocket druggability 0.074
Direct ligand evidence 0 70 total records
Functional annotation 1 EC 7 GO
Target summary

Target candidate with partial support; inspect missing evidence before prioritizing.

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 (%)
42.345 Lower values reduce human off-target concern.
Human E-value
1.23e-74
Gut microbiome similarity
13.0% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
N
DEG identity (%)
0.0 Higher values support similarity to known essential genes.

Localization

Localization
Cytoplasmic

Structure confidence

ColabFold pLDDT
95.41 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 0.074
Structure A0A0H3GMI1
Pocket Pocket 6
P2Rank 0.532
Structure A0A0H3GMI1
Pocket Pocket 1
ColabFold model
FPocket 0.875 · Pocket 5
P2Rank 0.622 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 616 / 4744 genomes with a hit
Prevalence 13.0%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MANPLYQKHIISINDLSREDLELVLATAAKLKANPQPELLKHKVIASCFFEASTRTRLSFETSMHRLGASVVGFSDSANTSLGKKGETLADTISVISTYVDAIVMRHPQEGAARLATEFSGGVPVLNAGDGANQHPTQTLLDLFTIQETQGRLENLNVAMVGDLKYGRTVHSLTQALAKFNGNRFYFIAPDALAMPQYILDMLDEKGIAWSLHSAIDDVMAEVDILYMTRVQKERLDPSEYANVKAQFVLRAADLEGARANMKVLHPLPRIDEITTDVDKTPHAWYFQQAGNGIFARQALLALVLNSELAL

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:0006207 The chemical reactions and pathways resulting in the formation of pyrimidine nucleobases, 1,3-diazine, organic nitrogenous bases, beginning with the synthesis of a pyrimidine ring from simpler precursors.
  • GO:0016597 Binding to an amino acid, organic acids containing one or more amino substituents.
  • GO:0006520 The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups.
  • GO:0004070 Catalysis of the reaction: L-aspartate + carbamoyl phosphate = N-carbamoyl-L-aspartate + H+ + phosphate.
  • GO:0016743 Catalysis of the transfer of a carboxyl- or carbamoyl group from one compound (donor) to another (acceptor).
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0044205 The chemical reactions and pathways resulting in the formation of UMP, uridine monophosphate, starting with the synthesis of (S)-dihydroorotate from bicarbonate; UMP biosynthesis may either occur via reduction by quinone, NAD+ or oxygen.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

33 records
Show feature table
Start End DB Term Name
9 302 Gene3D G3DSA:3.40.50.1370 Aspartate/ornithine carbamoyltransferase
9 302 InterPro IPR036901 Aspartate/ornithine carbamoyltransferase superfamily
135 292 Gene3D G3DSA:3.40.50.1370 Aspartate/ornithine carbamoyltransferase
135 292 InterPro IPR036901 Aspartate/ornithine carbamoyltransferase superfamily
138 292 FunFam G3DSA:3.40.50.1370:FF:000002 Aspartate carbamoyltransferase 2
7 307 Hamap MF_00001 Aspartate carbamoyltransferase [pyrB].
7 307 InterPro IPR002082 Aspartate carbamoyltransferase
3 307 PANTHER PTHR45753 ORNITHINE CARBAMOYLTRANSFERASE, MITOCHONDRIAL
4 306 SUPERFAMILY SSF53671 Aspartate/ornithine carbamoyltransferase
4 306 InterPro IPR036901 Aspartate/ornithine carbamoyltransferase superfamily
9 137 FunFam G3DSA:3.40.50.1370:FF:000001 Aspartate carbamoyltransferase
8 305 NCBIfam TIGR00670 aspartate carbamoyltransferase
8 305 InterPro IPR002082 Aspartate carbamoyltransferase
39 61 PRINTS PR00101 Aspartate carbamoyltransferase signature
79 88 PRINTS PR00101 Aspartate carbamoyltransferase signature
226 235 PRINTS PR00101 Aspartate carbamoyltransferase signature
134 151 PRINTS PR00101 Aspartate carbamoyltransferase signature
286 300 PRINTS PR00101 Aspartate carbamoyltransferase signature
264 269 PRINTS PR00101 Aspartate carbamoyltransferase signature
49 56 ProSitePatterns PS00097 Aspartate and ornithine carbamoyltransferases signature.
49 56 InterPro IPR006130 Aspartate/ornithine carbamoyltransferase
8 148 Pfam PF02729 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain
8 148 InterPro IPR006132 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding
270 293 PRINTS PR00100 Aspartate/ornithine carbamoyltransferase superfamily signature
270 293 InterPro IPR006130 Aspartate/ornithine carbamoyltransferase
49 68 PRINTS PR00100 Aspartate/ornithine carbamoyltransferase superfamily signature
49 68 InterPro IPR006130 Aspartate/ornithine carbamoyltransferase
260 269 PRINTS PR00100 Aspartate/ornithine carbamoyltransferase superfamily signature
260 269 InterPro IPR006130 Aspartate/ornithine carbamoyltransferase
135 146 PRINTS PR00100 Aspartate/ornithine carbamoyltransferase superfamily signature
135 146 InterPro IPR006130 Aspartate/ornithine carbamoyltransferase
155 303 Pfam PF00185 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain
155 303 InterPro IPR006131 Aspartate/ornithine carbamoyltransferase, Asp/Orn-binding domain

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

Probability: high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Site 1 P2Rank #1
0.532
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.099
Show in viewer
Surrounding area
Residue sets
UniProt: Binding site:106-106
UniProt: Binding site:135-135
UniProt: Binding site:138-138
UniProt: Binding site:168-168
UniProt: Binding site:230-230
UniProt: Binding site:268-268
UniProt: Binding site:269-269
UniProt: Binding site:55-55
UniProt: Binding site:56-56
UniProt: Binding site:85-85
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_A0A0H3GMI1
AlphaFold DB full sequence Viewing
ColabFold KP13_01290
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.

70 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 20 records from similar proteins
Structural ligands 18 0 loaded crystals
Measured bioactivity 2 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
1IP PDB via homolog 254.1 Da · LogP -2.39 · TPSA 167.0 Open detail RCSB PDB
6PR PDB via homolog Detail RCSB PDB
AL0 PDB via homolog Detail RCSB PDB
CP PDB via homolog Detail RCSB PDB
D48 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
1IP RCSB PDB P0A786 254.1 Da LogP -2.39 TPSA 167.0 ✓ Ro5 ✓ Clean C([C@@H](C(=O)O)NC(=O)CP(=O)(O)O)C(=O)N
6PR RCSB PDB P0A786 254.1 Da LogP -2.39 TPSA 167.0 ✓ Ro5 ✓ Clean C([C@@H](C(=O)N)NC(=O)CP(=O)(O)O)C(=O)O
AL0 RCSB PDB P0A786 149.1 Da LogP -1.23 TPSA 116.2 ✓ Ro5 ✓ Clean C([C@@H](C(=O)O)N)N(N=O)O
CP RCSB PDB P0A786 141.0 Da LogP -0.83 TPSA 109.9 ✓ Ro5 ✓ Clean C(=O)(N)OP(=O)(O)O
D48 RCSB PDB O15804 160.2 Da LogP 2.25 TPSA 40.5 ✓ Ro5 Alert c1ccc2cc(c(cc2c1)O)O
DOR RCSB PDB P27708 158.1 Da LogP -1.33 TPSA 95.5 ✓ Ro5 ✓ Clean C1[C@H](NC(=O)NC1=O)C(=O)O
EOB RCSB PDB P0A786 352.2 Da LogP -0.08 TPSA 173.3 1 viol. ✓ Clean c1cc(cc(c1)NC(=O)CP(=O)(O)O)NC(=O)CP(=O)(O)O
EOP RCSB PDB P0A786 304.1 Da LogP -2.43 TPSA 173.3 1 viol. ✓ Clean C(CNC(=O)CP(=O)(O)O)NC(=O)CP(=O)(O)O
EOZ RCSB PDB P0A786 396.2 Da LogP -0.38 TPSA 210.6 1 viol. ✓ Clean c1c(cc(cc1NC(=O)CP(=O)(O)O)NC(=O)CP(=O)(O)O)C(=…
FLC RCSB PDB P0A786 189.1 Da LogP -5.25 TPSA 140.6 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(CC(=O)[O-])(C(=O)[O-])O
FOT RCSB PDB P27708 174.1 Da LogP -1.10 TPSA 103.0 ✓ Ro5 ✓ Clean C1(=C(NC(=O)NC1=O)C(=O)O)F
MAE RCSB PDB P0A786 116.1 Da LogP -0.29 TPSA 74.6 ✓ Ro5 ✓ Clean C(=C/C(=O)O)/C(=O)O
MLI RCSB PDB P0A786 102.0 Da LogP -3.12 TPSA 80.3 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(=O)[O-]
MLT RCSB PDB P0A786 134.1 Da LogP -1.09 TPSA 94.8 ✓ Ro5 ✓ Clean C([C@H](C(=O)O)O)C(=O)O
NCD RCSB PDB P0A786 176.1 Da LogP -1.42 TPSA 129.7 ✓ Ro5 ✓ Clean C([C@@H](C(=O)O)NC(=O)N)C(=O)O
ORO RCSB PDB P27708 156.1 Da LogP -1.24 TPSA 103.0 ✓ Ro5 ✓ Clean C1=C(NC(=O)NC1=O)C(=O)O
PAL RCSB PDB P0A786 255.1 Da LogP -1.79 TPSA 161.2 ✓ Ro5 ✓ Clean C([C@@H](C(=O)O)NC(=O)CP(=O)(O)O)C(=O)O
PCT RCSB PDB P0A786 139.0 Da LogP -1.35 TPSA 100.6 ✓ Ro5 ✓ Clean C(C(=O)N)P(=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.