KpKP13 Protein target profile

OmpA/MotB domain-containing protein

Accession: KP13_03056

Gene: AHE43392.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A6A8EPN9
Length 558
Pocket druggability (P2Rank · AlphaFold DB model) 0.108
Direct ligand evidence 0 55 total records
Functional annotation 0 EC 2 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
0.3% 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
84.18 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) 0.108
Structure A0A6A8EPN9
Pocket Pocket 1
Druggability (FPocket) 0.933
Structure A0A6A8EPN9
Pocket Pocket 39
ColabFold model
P2Rank 0.149 · Pocket 1
FPocket 0.891 · Pocket 12
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 12 / 4744 genomes with a hit
Prevalence 0.3%

Sequence

Primary amino-acid sequence viewer.

MRRKVIISVGLHTLAAVAALLWLLWYFIPTGNVFKGLSTLLILLLAGWYVFKNCRHEEPVPDAYLPAAELPLLDAEGPVVLVCGDMLDALFQGSPLRKTAQGWWLRVGDVSRLADVVRSIQTQFPRQVGQLSVMYRCLPDHHQDEAVLRSALKTLRQQCKQIKSLTGITLPVVLNAELSGPETPWIIVRGDKPMVCPLNDSPQAFIDWQQTDANILALPAVSQAFSFIRNTLADELDKPDRLTPPVRAFSVIMRLGVVSPETRSVWAGWLYSRTCLQFSRAPGQSSTSLFPDAVLPLLAPFASPVQGGKRTRLLVLLIWLCVLTALGISALNNRDLIRHVSTHLQRWNAIPMNHYPPKAESLVALKQDALLLERWQRQGEPLRYSLGYYPGQRLWLALQQAIDTWTPPPAPEPKPVPKIVRLDSMSLFDSGKSVLKDGSTKILVNALVGIKARPGWLIVVSGHTDNTGSVQLNQTLSLQRAEAVRNWMRDTGDVPESCFAVQGYGDSRPIASNDTPDGRAHNRRVEISLVPQADACRLLGAKHASQDVGDVSTREMEK

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

2 GO

Subcellular localization

Localization
CytoplasmicMembrane

Gene Ontology (GO)

2
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0009279 A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

27 records
Show feature table
Start End DB Term Name
1 4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
5 27 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
28 32 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
313 331 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
52 312 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
473 489 PRINTS PR01021 OMPA domain signature
473 489 InterPro IPR006664 Outer membrane protein, bacterial
458 473 PRINTS PR01021 OMPA domain signature
458 473 InterPro IPR006664 Outer membrane protein, bacterial
428 450 PRINTS PR01021 OMPA domain signature
428 450 InterPro IPR006664 Outer membrane protein, bacterial
406 528 SUPERFAMILY SSF103088 OmpA-like
406 528 InterPro IPR036737 OmpA-like domain superfamily
412 534 Gene3D G3DSA:3.30.1330.60 -
412 534 InterPro IPR036737 OmpA-like domain superfamily
33 51 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
419 536 PANTHER PTHR30329 STATOR ELEMENT OF FLAGELLAR MOTOR COMPLEX
332 558 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
313 331 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
427 529 CDD cd07185 OmpA_C-like
427 529 InterPro IPR006665 OmpA-like domain
5 27 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
427 523 Pfam PF00691 OmpA family
427 523 InterPro IPR006665 OmpA-like domain
32 51 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
415 533 ProSiteProfiles PS51123 OmpA-like domain profile.
415 533 InterPro IPR006665 OmpA-like domain

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
0.108
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Surrounding area
Pocket 2 P2Rank #2
0.084
Likely same site as FPocket 39 1.5 Å 11 shared residues 100% of smaller site
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Surrounding area
Pocket 3 P2Rank #3
0.082
Show in viewer
Surrounding area
Pocket 4 P2Rank #4
0.036
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Surrounding area
Pocket 5 P2Rank #5
0.024
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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 #39
0.933 Unusual size
Likely same site as P2Rank 2 1.5 Å 11 shared residues 100% of smaller site
Show in viewer
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_A0A6A8EPN9
AlphaFold DB full sequence Viewing
ColabFold KP13_03056
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.

55 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 5 records from similar proteins
Structural ligands 5 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
5GP PDB via homolog 363.2 Da · LogP -2.57 · TPSA 206.0 Open detail RCSB PDB
7QA PDB via homolog Detail RCSB PDB
API PDB via homolog Detail RCSB PDB
C8E PDB via homolog Detail RCSB PDB
SRT 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
5GP RCSB PDB Q9I4L6 363.2 Da LogP -2.57 TPSA 206.0 1 viol. ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O…
7QA RCSB PDB P13794 305.3 Da LogP -1.21 TPSA 179.0 1 viol. ✓ Clean C[C@H](C(=O)O)NC(=O)[C@H](CCC[C@H](C(=O)O)N)NC(…
API RCSB PDB Q6RYW5 190.2 Da LogP -1.02 TPSA 126.6 ✓ Ro5 ✓ Clean C(C[C@H](C(=O)O)N)C[C@@H](C(=O)O)N
C8E RCSB PDB P13794 306.4 Da LogP 2.41 TPSA 57.2 ✓ Ro5 ✓ Clean CCCCCCCCOCCOCCOCCOCCO
SRT RCSB PDB Q6RYW5 150.1 Da LogP -2.12 TPSA 115.1 ✓ Ro5 ✓ Clean [C@H]([C@H](C(=O)O)O)(C(=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.