KpKP13 Protein target profile

Glycerol-3-phosphate acyltransferase

Accession: KP13_02811

Gene: plsY AHE42619.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GTG3
Length 205
Pocket druggability (P2Rank · AlphaFold DB model) 0.966
Direct ligand evidence 0 58 total records
Functional annotation 1 EC 3 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 (%)
66.834 Higher values support similarity to known essential genes.
DEG E-value
1.6500000000000001e-99 Smaller values mean stronger essential-gene similarity.

Structure confidence

ColabFold pLDDT
93.94 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) 0.966
Structure A0A0H3GTG3
Pocket Pocket 1
Druggability (FPocket) 0.897
Structure A0A0H3GTG3
Pocket Pocket 2
ColabFold model
P2Rank 0.969 · Pocket 1
FPocket 0.999 · Pocket 11
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 147 / 4744 genomes with a hit
Prevalence 3.1%

Sequence

Primary amino-acid sequence viewer.

MSAIAPGLVLLAYLCGSISSAILVCRLAGLPDPRDSGSGNPGATNVLRIGGKGAAVAVLIFDVLKGMLPVWGAWALGLTPFWLGLVAIAACVGHIWPVFFHFRGGKGVATAFGAIAPIGLDLTGVMAGTWLLTILLSGYSSLGAIVSALIAPFYVWWFKPQYTFPVSMLSCLILLRHHDNIQRLWRRQESKIWTRVKKKKTPEQK

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 3 GO

Subcellular localization

Localization
CytoplasmicMembrane

Enzyme Commission (EC)

1

Gene Ontology (GO)

3
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
  • GO:0008654 The chemical reactions and pathways resulting in the formation of a phospholipid, a lipid containing phosphoric acid as a mono- or diester.
  • GO:0043772 Catalysis of the reaction: acyl phosphate + sn-glycerol 3-phosphate = 1-acyl-sn-glycerol 3-phosphate + orthophosphate.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

30 records
Show feature table
Start End DB Term Name
133 138 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
15 21 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
1 2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
157 161 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
10 185 SMART SM01207 G3P_acyltransf_2
10 185 InterPro IPR003811 Glycerol-3-phosphate acyltransferase, PlsY
1 20 SignalP_EUK SignalP-TM SignalP-TM
139 156 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
3 14 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
7 29 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
108 132 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
97 107 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
139 158 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 194 NCBIfam TIGR00023 glycerol-3-phosphate 1-O-acyltransferase PlsY
1 194 InterPro IPR003811 Glycerol-3-phosphate acyltransferase, PlsY
11 184 Pfam PF02660 Glycerol-3-phosphate acyltransferase
11 184 InterPro IPR003811 Glycerol-3-phosphate acyltransferase, PlsY
179 205 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
162 178 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
65 70 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
78 100 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
71 96 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 21 Phobius SIGNAL_PEPTIDE Signal peptide region
45 64 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
22 44 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 200 PANTHER PTHR30309 INNER MEMBRANE PROTEIN YGIH
1 200 InterPro IPR003811 Glycerol-3-phosphate acyltransferase, PlsY
7 193 Hamap MF_01043 Glycerol-3-phosphate acyltransferase [plsY].
7 193 InterPro IPR003811 Glycerol-3-phosphate acyltransferase, PlsY
112 134 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.

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
0.966
Likely same site as FPocket 2 1.1 Å 33 shared residues 97% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.085
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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 #2
0.897 Unusual size
Likely same site as P2Rank 1 1.1 Å 33 shared residues 97% of smaller site
Show in viewer
Surrounding area
Pocket 2 FPocket #3
0.412
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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_A0A0H3GTG3
AlphaFold DB full sequence Viewing
ColabFold KP13_02811
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
78M PDB via homolog 314.5 Da · LogP 3.75 · TPSA 66.8 Open detail RCSB PDB
79M PDB via homolog Detail RCSB PDB
87O PDB via homolog Detail RCSB PDB
FME PDB via homolog Detail RCSB PDB
G3P 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
78M RCSB PDB O66905 314.5 Da LogP 3.75 TPSA 66.8 ✓ Ro5 ✓ Clean CCCCCCC/C=C\CCCCCC(=O)OC[C@H](CO)O
79M RCSB PDB O66905 328.5 Da LogP 4.14 TPSA 66.8 ✓ Ro5 ✓ Clean CCCCCCCC/C=C\CCCCCC(=O)OC[C@@H](CO)O
87O RCSB PDB O66905 336.4 Da LogP 5.10 TPSA 83.8 1 viol. ✓ Clean CCCCCCCCCCCCCCCC(=O)OP(=O)(O)O
FME RCSB PDB O66905 177.2 Da LogP -0.06 TPSA 66.4 ✓ Ro5 ✓ Clean CSCC[C@@H](C(=O)O)NC=O
G3P RCSB PDB O66905 172.1 Da LogP -1.55 TPSA 107.2 ✓ Ro5 ✓ Clean C([C@H](COP(=O)(O)O)O)O
NKO RCSB PDB O66905 410.5 Da LogP 4.48 TPSA 113.3 ✓ Ro5 ✓ Clean CCCCCCCCCCCCCCCC(=O)OC[C@H](COP(=O)(O)O)O
OLC RCSB PDB O66905 356.5 Da LogP 4.92 TPSA 66.8 ✓ Ro5 ✓ Clean CCCCCCCC\C=C/CCCCCCCC(=O)OC[C@@H](CO)O
SEY RCSB PDB O66905 123.0 Da LogP -1.84 TPSA 52.0 ✓ Ro5 ✓ Clean C(=[Se])(N)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.