KpKP13 Protein target profile

Inner membrane transport protein

Accession: KP13_00966

Gene: AHE43504.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GR33
Length 430
Pocket druggability (P2Rank · AlphaFold DB model) 0.95
Direct ligand evidence 0 79 total records
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.

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
Hit
Human identity (%)
24.093 Lower values reduce human off-target concern.
Human E-value
2.35e-11
Gut microbiome similarity
0.8% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
89.34 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) 0.95
Structure A0A0H3GR33
Pocket Pocket 1
Druggability (FPocket) 0.797
Structure A0A0H3GR33
Pocket Pocket 11
ColabFold model
P2Rank 0.887 · Pocket 1
FPocket 0.926 · Pocket 22
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 36 / 4744 genomes with a hit
Prevalence 0.8%

Sequence

Primary amino-acid sequence viewer.

MMSNTLLESVVKKNRARLIPFMLALYVLTFLDRSNIGFAKETYQLDTGLSNEAYALGAGIFFVVYAFLGVPANLLMRKFGARRWIGCTTLLWGVLSAAMAWADTEAKFLLVRTLLGAAEAGFFPGMIYLTSQWFPQQNRASIMGLFYMGAPLALTLGSPLSGALLEMHGFMGHPGWFWMFVIEGLLAVAAGAFTFFWLDDSPQHARFLSAAEKQALISELAREEEKKIASRLSDALRNGRVWQLALIYLTIQVAVYGLIFFLPTQVAALLGTKVGFVASVVTAIPWVAALFGTWLIPRYSDRTGERRNIAALTLLAAAVGIAVSGLVAPVLAIIALCVAAVGVIAVQPVFWTMPTQLLSGTALAAGIGFVNLFGAIGGFLAPIVRVQAETLFASSAAGLLTLAGVAIVGVVIIFSLSLTRAVPQRGSVQH

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Subcellular localization

Localization
CytoplasmicMembrane

Gene Ontology (GO)

3
  • 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: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.

52 records
Show feature table
Start End DB Term Name
77 82 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
40 54 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
359 381 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
308 327 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
263 273 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
176 198 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
242 264 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
274 296 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 17 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
24 382 Pfam PF07690 Major Facilitator Superfamily
24 382 InterPro IPR011701 Major facilitator superfamily
328 332 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
199 240 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
396 418 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
274 296 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
333 351 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
385 395 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
83 102 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
309 326 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
18 421 ProSiteProfiles PS50850 Major facilitator superfamily (MFS) profile.
18 421 InterPro IPR020846 Major facilitator superfamily domain
352 362 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
363 384 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
7 214 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains
7 214 InterPro IPR036259 MFS transporter superfamily
330 352 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
143 165 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 39 Phobius SIGNAL_PEPTIDE Signal peptide region
175 197 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
103 107 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
108 130 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
83 102 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
17 39 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
10 416 SUPERFAMILY SSF103473 MFS general substrate transporter
10 416 InterPro IPR036259 MFS transporter superfamily
55 76 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
108 130 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
18 31 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
241 262 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
54 76 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
230 426 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains
230 426 InterPro IPR036259 MFS transporter superfamily
131 141 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
396 418 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
15 414 CDD cd17319 MFS_ExuT_GudP_like
142 164 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
9 420 PANTHER PTHR43791 PERMEASE-RELATED
297 307 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
165 175 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
8 213 FunFam G3DSA:1.20.1250.20:FF:000018 MFS transporter permease
419 430 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
32 39 Phobius SIGNAL_PEPTIDE_C_REGION C-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
0.95
Likely same site as FPocket 26 5.8 Å 23 shared residues 72% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.149
Likely same site as FPocket 11 2.9 Å 10 shared residues 100% of smaller site
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Surrounding area
Pocket 3 P2Rank #3
0.108
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Surrounding area
Pocket 4 P2Rank #4
0.017
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Surrounding area
Pocket 5 P2Rank #5
0.01
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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 #11
0.797 Unusual size
Likely same site as P2Rank 2 2.9 Å 10 shared residues 100% of smaller site
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Surrounding area
Pocket 2 FPocket #26
0.351 Unusual size
Likely same site as P2Rank 1 5.8 Å 23 shared residues 72% of smaller site
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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_A0A0H3GR33
AlphaFold DB full sequence Viewing
ColabFold KP13_00966
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.

79 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 29 records from similar proteins
Structural ligands 1 0 loaded crystals
Measured bioactivity 28 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
J0M PDB via homolog 196.2 Da · LogP -3.49 · TPSA 138.5 Open detail RCSB PDB
CHEMBL149394 ChEMBL via homolog Detail ChEMBL
CHEMBL1590868 ChEMBL via homolog Detail ChEMBL
CHEMBL1973733 ChEMBL via homolog Detail ChEMBL
CHEMBL2375078 ChEMBL via homolog Detail ChEMBL

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
J0M RCSB PDB J7QAK3 196.2 Da LogP -3.49 TPSA 138.5 1 viol. ✓ Clean C([C@H]([C@@H]([C@@H]([C@H](C(=O)O)O)O)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.