KpATCC43816 Protein target profile

PTS system sugar-specific permease component family protein

Accession: VK055_2204

Gene: AIK80809.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GNZ0
Length 463
Pocket druggability (P2Rank · AlphaFold DB model) 0.866
Direct ligand evidence 0 53 total records
Functional annotation 0 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
4.4% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
89.76 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) 0.866
Structure A0A0H3GNZ0
Pocket Pocket 1
Druggability (FPocket) 0.788
Structure A0A0H3GNZ0
Pocket Pocket 8
ColabFold model
P2Rank 0.883 · Pocket 1
FPocket 0.898 · Pocket 7
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 210 / 4744 genomes with a hit
Prevalence 4.4%

Metabolic context

Reactions catalyzed, pathway membership, and centrality in the genome-scale metabolic network.

This protein is not associated with the imported metabolic network for this genome.

Browse the genome's metabolic network

Imported from KpATCC43816.sbml · 2026-07-09

Sequence

Primary amino-acid sequence viewer.

MQAILSFLTEIFSQPAFLMGLIAFVGLVALRSPGNKLLTGTLKPILGYLMLSAGAGVIVANLNPLGGIIEAGFNIRGVIPNNEAIVSVAQKMLGVETMSILLLGFIFNLIIARCTKYKYIFLTGHHSFFLACLFSAVLQAAEFQGWMLILIGGFLLGSWSAISPAIGQRYTRQVTEDGGIAMGHFGSLGYYLSAWIASRTGNPANSFADTEISEKWGFLRDTTVTTGIVMFVIYFVCSAVAGSAYLSTITDQNMLIFSVLTGLQFAVGVAIVYNGVRLILGDLVPAFQGISQKLIPDSIPAVDCAVFFTFSPTAVVVGFISSFVGGLVGMLLLGGLGMALIIPGMVPHFFCGGTSGVFADKLGGKRGCIIASFIGGIFLAFLPAMLLPALGNLGFENSTFADFDFAVWGIIIGNAFTQFGQITIYLICLALLVALLAPFCFRHVQVVGNTLSYEELTAKQKNE

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Subcellular localization

Localization
CytoplasmicMembrane

Gene Ontology (GO)

3
  • 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:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

37 records
Show feature table
Start End DB Term Name
12 30 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
405 436 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
281 300 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
63 91 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
301 321 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
45 67 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
31 41 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
442 463 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
10 32 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
368 390 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
138 142 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
347 366 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
163 227 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
228 248 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
119 141 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
314 336 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
92 112 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
391 421 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
225 247 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
143 162 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
254 280 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
145 167 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
322 326 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
180 197 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
10 404 Pfam PF03611 PTS system sugar-specific permease component
10 404 InterPro IPR004703 Phosphotransferase system, sugar-specific permease component
327 346 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
42 62 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
119 137 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
422 441 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
93 112 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
249 253 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
3 441 PANTHER PTHR33843 ASCORBATE-SPECIFIC PTS SYSTEM EIIC COMPONENT
113 118 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
367 390 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
254 276 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
0.866
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Surrounding area
Pocket 2 P2Rank #2
0.107
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Surrounding area
Pocket 3 P2Rank #3
0.092
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Surrounding area
Pocket 4 P2Rank #4
0.07
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Surrounding area
Pocket 5 P2Rank #5
0.069
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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 #8
0.788
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Surrounding area
Pocket 2 FPocket #7
0.55
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Surrounding area
Pocket 3 FPocket #9
0.39
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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_A0A0H3GNZ0
AlphaFold DB full sequence Viewing
ColabFold VK055_2204
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.

53 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 3 records from similar proteins
Structural ligands 3 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
ASC PDB via homolog 176.1 Da · LogP -1.41 · TPSA 107.2 Open detail RCSB PDB
BNG PDB via homolog Detail RCSB PDB
TGL PDB via homolog Detail RCSB PDB
ZINC100050848 ZINC proposed compound · Tanimoto 1.000 Detail ZINC
ZINC100056252 ZINC proposed compound · Tanimoto 1.000 Detail ZINC

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
ASC RCSB PDB P39301 176.1 Da LogP -1.41 TPSA 107.2 ✓ Ro5 ✓ Clean C([C@@H]([C@@H]1C(=C(C(=O)O1)O)O)O)O
BNG RCSB PDB P39301 306.4 Da LogP 0.55 TPSA 99.4 ✓ Ro5 ✓ Clean CCCCCCCCCO[C@H]1[C@@H]([C@H]([C@@H]([C@H](O1)CO…
TGL RCSB PDB P39301 891.5 Da LogP 18.77 TPSA 78.9 2 viol. ✓ Clean CCCCCCCCCCCCCCCCCC(=O)OCC(COC(=O)CCCCCCCCCCCCCC…

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.