KpKP13 Protein target profile

Phosphoenolpyruvate-protein phosphotransferase

Accession: KP13_03551

Gene: ptsI AHE43357.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3H186
Length 575
Pocket druggability (P2Rank · AlphaFold DB model) 0.734
Direct ligand evidence 0 56 total records
Functional annotation 1 EC 8 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
5.5% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
90.25 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) 0.734
Structure A0A0H3H186
Pocket Pocket 1
Druggability (FPocket) 0.63
Structure A0A0H3H186
Pocket Pocket 17
ColabFold model
P2Rank 0.592 · Pocket 1
FPocket 0.404 · Pocket 36
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 261 / 4744 genomes with a hit
Prevalence 5.5%

Sequence

Primary amino-acid sequence viewer.

MISGILASPGIAFGKALLLKEDEIVIDRKKISADKVDQEVERFLSGRAKASAQLEVIKTKAGETFGEEKEAIFEGHIMLLEDEELEQEIIALIKDKHMTADAAANEVIDGQATALEELDDEYLKERAADVRDIGKRLLRNILGLAIIDLSAIQDEVILVAADLTPSETAQLNLKKVLGFITDAGGRTSHTSIMARSLELPAIVGTGSITAQVKNGDYLILDAVNNQVLINPSNEQIEALRSLQAQVAEEKAELAKLKDLPAITLDGHQVEVCANIGTVRDVEGAERNGAEGVGLYRTEFLFMDRDALPTEEEQFAAYKAVAEACGSQAVIVRTMDIGGDKELPYMNFPKEENPFLGWRAVRIAMDRKEILRDQVRAILRASAFGKLRIMFPMIISVEEVRALKKEIEIYKQELRDEGKAFDESIEIGVMVETPAAATIARHLAKEVDFFSIGTNDLTQYTLAVDRGNDMISHLYQPMSPSVLNLIKQVIDASHAEGKWTGMCGELAGDERATLLLLGMGLDEFSMSAISIPRIKKIIRNTNFEDAKVLAEQALAQPTTDELMTLVNKFIEEKTIC

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:0016310 The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
  • GO:0016772 Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to another (acceptor).
  • 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:0009401 The uptake and phosphorylation of specific carbohydrates from the extracellular environment; uptake and phosphorylation are coupled, making the PTS a link between the uptake and metabolism of sugars; phosphoenolpyruvate is the original phosphate donor; phosphoenolpyruvate passes the phosphate via a signal transduction pathway, to enzyme 1 (E1), which in turn passes it on to the histidine protein, HPr; the next step in the system involves sugar-specific membrane-bound complex, enzyme 2 (EII), which transports the sugar into the cell; it includes the sugar permease, which catalyzes the transport reactions; EII is usually divided into three different domains, EIIA, EIIB, and EIIC.
  • GO:0008965 Catalysis of the reaction: phosphoenolpyruvate + protein L-histidine = pyruvate + protein N(pi)-phospho-L-histidine.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0016301 Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
  • GO:0046872 Binding to a metal ion.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

35 records
Show feature table
Start End DB Term Name
23 143 SUPERFAMILY SSF47831 Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain
23 143 InterPro IPR036618 PtsI, HPr-binding domain superfamily
138 235 FunFam G3DSA:3.50.30.10:FF:000001 Phosphoenolpyruvate-protein phosphotransferase
21 146 FunFam G3DSA:1.10.274.10:FF:000001 Phosphoenolpyruvate-protein phosphotransferase
232 259 Coils Coil Coil
21 146 Gene3D G3DSA:1.10.274.10 -
21 146 InterPro IPR036618 PtsI, HPr-binding domain superfamily
152 222 Pfam PF00391 PEP-utilising enzyme, mobile domain
152 222 InterPro IPR008279 PEP-utilising enzyme, mobile domain
250 541 Pfam PF02896 PEP-utilising enzyme, PEP-binding domain
250 541 InterPro IPR000121 PEP-utilising enzyme, C-terminal
396 419 Coils Coil Coil
2 566 NCBIfam TIGR01417 phosphoenolpyruvate--protein phosphotransferase
2 566 InterPro IPR006318 Phosphotransferase system, enzyme I-like
249 549 SUPERFAMILY SSF51621 Phosphoenolpyruvate/pyruvate domain
249 549 InterPro IPR015813 Pyruvate/Phosphoenolpyruvate kinase-like domain superfamily
125 246 SUPERFAMILY SSF52009 Phosphohistidine domain
125 246 InterPro IPR036637 Phosphohistidine domain superfamily
2 572 PANTHER PTHR46244 PHOSPHOENOLPYRUVATE-PROTEIN PHOSPHOTRANSFERASE
234 575 Gene3D G3DSA:3.20.20.60 -
234 575 InterPro IPR040442 Pyruvate kinase-like domain superfamily
447 465 ProSitePatterns PS00742 PEP-utilizing enzymes signature 2.
447 465 InterPro IPR023151 PEP-utilising enzyme, conserved site
4 126 Pfam PF05524 PEP-utilising enzyme, N-terminal
4 126 InterPro IPR008731 Phosphotransferase system, enzyme I N-terminal
184 195 ProSitePatterns PS00370 PEP-utilizing enzymes phosphorylation site signature.
184 195 InterPro IPR018274 PEP-utilising enzyme, active site
4 233 Gene3D G3DSA:3.50.30.10 Phosphohistidine domain
293 312 PRINTS PR01736 Phosphoenolpyruvate-protein phosphotransferase signature
500 512 PRINTS PR01736 Phosphoenolpyruvate-protein phosphotransferase signature
464 479 PRINTS PR01736 Phosphoenolpyruvate-protein phosphotransferase signature
447 462 PRINTS PR01736 Phosphoenolpyruvate-protein phosphotransferase signature
236 572 FunFam G3DSA:3.20.20.60:FF:000007 Phosphoenolpyruvate-protein phosphotransferase
1 574 PIRSF PIRSF000732 PTS_enzyme_I
1 574 InterPro IPR024692 Phosphotransferase system, enzyme I

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
0.734
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Surrounding area
Pocket 2 P2Rank #2
0.224
Likely same site as FPocket 17 2.4 Å 11 shared residues 100% of smaller site
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Surrounding area
Pocket 3 P2Rank #3
0.084
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Surrounding area
Pocket 4 P2Rank #4
0.062
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Surrounding area
Pocket 5 P2Rank #5
0.023
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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 #17
0.63 Unusual size
Likely same site as P2Rank 2 2.4 Å 11 shared residues 100% of smaller site
Show in viewer
Surrounding area
Residue sets
UniProt: Active site:189-189 Tele-phosphohistidine intermediate
UniProt: Active site:502-502 Proton donor
UniProt: Binding site:296-296
UniProt: Binding site:332-332
UniProt: Binding site:431-431
UniProt: Binding site:454-455
UniProt: Binding site:455-455
UniProt: Binding site:465-465
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_A0A0H3H186
AlphaFold DB full sequence Viewing
ColabFold KP13_03551
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.

56 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 6 records from similar proteins
Structural ligands 6 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
6NQ PDB via homolog 569.1 Da · LogP -0.65 · TPSA 261.7 Open detail RCSB PDB
NH4 PDB via homolog Detail RCSB PDB
OXL PDB via homolog Detail RCSB PDB
PEP PDB via homolog Detail RCSB PDB
PO3 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
6NQ RCSB PDB P22221 569.1 Da LogP -0.65 TPSA 261.7 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
NH4 RCSB PDB P22983 18.0 Da LogP 0.38 TPSA 36.5 ✓ Ro5 ✓ Clean [NH4+]
OXL RCSB PDB P08839 88.0 Da LogP -3.51 TPSA 80.3 ✓ Ro5 ✓ Clean C(=O)(C(=O)[O-])[O-]
PEP RCSB PDB P11155 168.0 Da LogP -0.31 TPSA 104.1 ✓ Ro5 ✓ Clean C=C(C(=O)O)OP(=O)(O)O
PO3 RCSB PDB P08839 79.0 Da LogP -1.64 TPSA 63.2 ✓ Ro5 ✓ Clean [O-][P-](=O)[O-]
PPR RCSB PDB P22983 168.0 Da LogP -1.18 TPSA 111.9 ✓ Ro5 ✓ Clean C(C(=O)C(=O)O)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.

Cross-references

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