KpKP13 Protein target profile

Inner membrane ABC transporter permease protein

Accession: KP13_05406

Gene: AHE45050.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GVW7
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Length 511
Pocket druggability (P2Rank · AlphaFold DB model) 0.9
Functional annotation 0 EC 3 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

Independent pocket support: P2Rank + FPocket Both predictors report a high-scoring binding site (P2Rank 0.90, FPocket 0.75). Use the 3D pocket comparison to verify whether they identify the same site. No similar human protein detected The current BLAST sequence screen did not find a significant human match, lowering apparent off-target risk. Strong predicted binding pocket FPocket selected-pocket score 0.75. This is a computational pocket signal, not binding validation. Second pocket predictor agrees P2Rank predicted binding-site probability 0.90. Review the complete evidence below

Risks to review

Microbiome similarity 46 of 4744 screened genomes (1.0%) have a significant similarity hit. This target also has a predicted binding pocket (P2Rank 0.90) — check the ligand evidence before deprioritizing on off-target risk alone. Mixed conservation Core/accessory calls are not fully concordant.

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
1.0% 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.

Structure confidence

ColabFold pLDDT
89.49 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) 0.9
Structure A0A0H3GVW7
Pocket Pocket 1
Druggability (FPocket) 0.746
Structure A0A0H3GVW7
Pocket Pocket 1
ColabFold model
P2Rank 0.974 · Pocket 1
FPocket 0.972 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 46 / 4744 genomes with a hit
Prevalence 1.0%

Sequence

Primary amino-acid sequence viewer.

MAAPLRYPLILLAWGAMAAIYLPLLPAAGELVGAARSPAHWRALFADPQLGQALAATLVSTLLSVGGALLIALTIVAALWPSARWRRLASRLPLLLAVPHLALATAALLLFAEGGWLWQQLPFLTPPVDRYGIGLGLTMALKESAFVLWVIYGLLGEKRLADQATALKSLGYGRWQCLRWLVLPALLPALGMVLLATTAWSLSAVDVALVLGPGNPPTLAVLAWQWLSQGDELQQAKGALASLLLMAILGGLALVAWGGWRLQRQYQPDLHGVRHPHPHALPGRLLAALLPLSGLLGALLLAGLARSAPPQMDALGNSLGLALAACALGAAVCLLWLACGPARGDGWVWLPLVLPALPLADGQYRLALYAWLDGDWWTVLWGHLLWVVPWMLFILRPAWRQRDPRLTVVARTLGWGSTRIFWLLTLPSLTRPLLTALAVGFSVSIAQYLPTLWLGAGRIPTLTSQAVALSSGGEAQTLAAQALWQLLLPAVCFTLTALLAWLAGRYRRGLR

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Subcellular localization

Localization
CytoplasmicMembrane

Gene Ontology (GO)

3
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0055085 The process in which a solute is transported across a lipid bilayer, 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.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

54 records
Show feature table
Start End DB Term Name
7 258 Gene3D G3DSA:1.10.3720.10 -
7 258 InterPro IPR035906 MetI-like superfamily
2 498 PANTHER PTHR30183 MOLYBDENUM TRANSPORT SYSTEM PERMEASE PROTEIN MODB
303 313 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
30 52 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
112 130 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
420 442 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
58 80 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
482 504 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
339 375 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
202 206 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
7 29 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
314 338 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
131 156 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
177 201 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 29 Phobius SIGNAL_PEPTIDE Signal peptide region
347 367 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
420 445 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
400 419 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
53 80 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
261 279 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
92 111 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
280 302 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
157 176 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
92 114 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
134 156 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
81 91 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
284 505 Gene3D G3DSA:1.10.3720.10 -
284 505 InterPro IPR035906 MetI-like superfamily
376 399 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
238 260 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
50 256 ProSiteProfiles PS50928 ABC transporter integral membrane type-1 domain profile.
50 256 InterPro IPR000515 ABC transporter type 1, transmembrane domain MetI-like
177 199 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
307 496 SUPERFAMILY SSF161098 MetI-like
307 496 InterPro IPR035906 MetI-like superfamily
207 227 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
228 238 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
281 303 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
504 511 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
446 481 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
377 399 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
348 484 Pfam PF00528 Binding-protein-dependent transport system inner membrane component
348 484 InterPro IPR000515 ABC transporter type 1, transmembrane domain MetI-like
10 25 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
318 340 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
371 488 CDD cd06261 TM_PBP2
371 488 InterPro IPR000515 ABC transporter type 1, transmembrane domain MetI-like
7 255 SUPERFAMILY SSF161098 MetI-like
7 255 InterPro IPR035906 MetI-like superfamily
482 503 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
26 29 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
239 260 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 9 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.

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
0.9
Likely same site as FPocket 1 2.1 Å 15 shared residues 83% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.435
Likely same site as FPocket 38 1.0 Å 15 shared residues 88% of smaller site
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Surrounding area
Pocket 3 P2Rank #3
0.276
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Surrounding area
Pocket 4 P2Rank #4
0.243
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Surrounding area
Pocket 5 P2Rank #5
0.149
Likely same site as FPocket 43 5.7 Å 10 shared residues 100% 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 #1
0.746
Likely same site as P2Rank 1 2.1 Å 15 shared residues 83% of smaller site
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Surrounding area
Pocket 2 FPocket #43
0.725 Unusual size
Likely same site as P2Rank 5 5.7 Å 10 shared residues 100% of smaller site
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Surrounding area
Pocket 3 FPocket #38
0.561
Likely same site as P2Rank 2 1.0 Å 15 shared residues 88% of smaller site
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Surrounding area
Pocket 4 FPocket #42
0.312
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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_A0A0H3GVW7
AlphaFold DB — — full sequence — Viewing
ColabFold KP13_05406
ColabFold — — full sequence — Loaded

Cross-references

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

Sequence

UniProt A0A0H3GVW7