KpKP13 Protein target profile

Raffinose permease

Accession: KP13_02258

Gene: AHE42830.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GSQ6
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Length 413
Pocket druggability (P2Rank · AlphaFold DB model) 0.952
Functional annotation 0 EC 7 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.

Main supporting evidence

No similar human protein detected The current BLAST sequence screen did not find a significant human match, lowering apparent off-target risk. Core gene across strains Marked as conserved by both pan-genome tools: Roary and CoreCruncher. Moderate predicted binding pocket FPocket selected-pocket score 0.44. This supports review but is not experimental validation. Second pocket predictor agrees P2Rank predicted binding-site probability 0.95. Review the complete evidence below

Risks to review

Microbiome similarity 65 of 4744 screened genomes (1.4%) have a significant similarity hit. This target also has a predicted binding pocket (P2Rank 0.95) — check the ligand evidence before deprioritizing on off-target risk alone.

Evidence gaps

No metabolic context No SBML/network-derived reaction evidence is loaded for this protein. No ligand evidence No experimental PDB ligands, measured ChEMBL bioactivity, or proposed ZINC compound records are available.
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
1.4% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
42.818 Higher values support similarity to known essential genes.
DEG E-value
5.879999999999999e-94 Smaller values mean stronger essential-gene similarity.

Structure confidence

ColabFold pLDDT
82.59 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 A0A0H3GSQ6
Pocket Pocket 1
Druggability (FPocket) 0.436
Structure A0A0H3GSQ6
Pocket Pocket 29
ColabFold model
P2Rank 0.957 · Pocket 1
FPocket 0.914 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 65 / 4744 genomes with a hit
Prevalence 1.4%

Sequence

Primary amino-acid sequence viewer.

MMKAPHSHSYPLLSALLFFFFVTWSSSGSLLSIWLHQEVGLKAGDTGIIYAVLSVSALFAQVCYGFIQDKLGLRKHLLWYITALLILSGPAYLLFGHLLKINVLLGSIFGGIYIGLTFNGGIGVLESYTERVARQSQFEFGRARMWGSLGWAVATFFAGLLFNINPQLNFLVASCSGLVFFILLARLRVSSAPHAMQEAVSGGKVTLEDALRLLTLPRFWALVFFVIGTCIYGVYDQQFPVYFSSQFATLQEGNEMYGYLNSFQVFLEAAGMFCAPWLVNRIGAKNGLIFAGMVMAMRMVASGLVEGPLLISITKLLHAVELPILLVAIFKYNSLNFDKRLSSTLYLVGFACTSSIIASVLSPLAGYSYEKYGFAQSYLIMGLLVFCTTFISIFLLRSGKSSADPLVSQPTAI

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

7 GO

Subcellular localization

Localization
CytoplasmicMembrane

Gene Ontology (GO)

7
  • GO:0008643 The directed movement of carbohydrate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Carbohydrates are a group of organic compounds based of the general formula Cx(H2O)y.
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0005351 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: carbohydrate(out) + H+(out) = carbohydrate(in) + H+(in).
  • GO:0022857 Enables the transfer of a substance, usually a specific substance or a group of related substances, from one side of a membrane to the other.
  • 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:0030395 Binding to lactose, a disaccharide of glucose and galactose, the carbohydrate of milk.
  • GO:0015528 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: lactose(out) + H+(out) = lactose(in) + H+(in).

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

69 records
Show feature table
Start End DB Term Name
344 365 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
146 164 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
25 32 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
286 305 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
377 396 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
13 35 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
45 67 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
8 400 SUPERFAMILY SSF103473 MFS general substrate transporter
8 400 InterPro IPR036259 MFS transporter superfamily
96 100 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
165 169 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
213 235 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
77 95 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
170 189 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
145 164 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
12 24 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
259 279 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 11 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
6 197 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains
6 197 InterPro IPR036259 MFS transporter superfamily
280 285 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
377 396 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
168 187 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
103 125 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
306 310 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
333 343 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
76 98 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
9 396 NCBIfam TIGR00882 oligosaccharide MFS transporter
9 396 InterPro IPR000576 LacY/RafB permease family
210 235 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
280 306 PRINTS PR00174 LacY proton/sugar symporter family signature
280 306 InterPro IPR000576 LacY/RafB permease family
311 330 PRINTS PR00174 LacY proton/sugar symporter family signature
311 330 InterPro IPR000576 LacY/RafB permease family
103 125 PRINTS PR00174 LacY proton/sugar symporter family signature
103 125 InterPro IPR000576 LacY/RafB permease family
69 98 PRINTS PR00174 LacY proton/sugar symporter family signature
69 98 InterPro IPR000576 LacY/RafB permease family
256 277 PRINTS PR00174 LacY proton/sugar symporter family signature
256 277 InterPro IPR000576 LacY/RafB permease family
145 163 PRINTS PR00174 LacY proton/sugar symporter family signature
145 163 InterPro IPR000576 LacY/RafB permease family
211 239 PRINTS PR00174 LacY proton/sugar symporter family signature
211 239 InterPro IPR000576 LacY/RafB permease family
342 362 PRINTS PR00174 LacY proton/sugar symporter family signature
342 362 InterPro IPR000576 LacY/RafB permease family
366 376 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
33 47 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
397 413 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
257 279 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
203 407 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains
203 407 InterPro IPR036259 MFS transporter superfamily
1 27 SignalP_EUK SignalP-TM SignalP-TM
9 400 Pfam PF01306 LacY proton/sugar symporter
9 400 InterPro IPR000576 LacY/RafB permease family
190 209 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
345 367 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
236 258 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
101 125 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
286 305 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
126 145 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 400 ProSiteProfiles PS50850 Major facilitator superfamily (MFS) profile.
1 400 InterPro IPR020846 Major facilitator superfamily domain
310 332 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
311 332 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
48 67 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
68 76 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
2 400 PANTHER PTHR23522 BLL5896 PROTEIN
1 32 Phobius SIGNAL_PEPTIDE Signal peptide region

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
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Surrounding area
Pocket 2 P2Rank #2
0.21
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Surrounding area
Pocket 3 P2Rank #3
0.178
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Surrounding area
Pocket 4 P2Rank #4
0.148
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Surrounding area
Pocket 5 P2Rank #5
0.081
Likely same site as FPocket 15 1.6 Å 10 shared residues 91% of smaller site
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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 #29
0.436
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Surrounding area
Pocket 2 FPocket #15
0.369
Likely same site as P2Rank 5 1.6 Å 10 shared residues 91% of smaller site
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Surrounding area
Pocket 3 FPocket #14
0.347
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Surrounding area
Pocket 4 FPocket #36
0.335 Unusual size
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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_A0A0H3GSQ6
AlphaFold DB — — full sequence — Viewing
ColabFold KP13_02258
ColabFold — — full sequence — Loaded

Cross-references

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

Sequence

UniProt A0A0H3GSQ6