KpATCC43816 Protein target profile

ammonium Transporter family protein

Accession: VK055_4196

Gene: AIK82741.1 3D evidence: ColabFold model Metabolism Not in network
Length 359
Pocket druggability (P2Rank · ColabFold model) 0.651
Direct ligand evidence 0 58 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
No hit
Gut microbiome similarity
0.2% 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
88.22 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

ColabFold / curated 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) 0.651
Structure CB_VK055_4196
Pocket Pocket 1
Druggability (FPocket) 0.435
Structure CB_VK055_4196
Pocket Pocket 3
ColabFold model
P2Rank 0.651 · Pocket 1
FPocket 0.435 · Pocket 3
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 11 / 4744 genomes with a hit
Prevalence 0.2%

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.

MEHALVNYLSLDVPNTAFMLLCASLVMLMTPGLAFFYGGLVPRKSIVTIMAQSFFSMGWVAALWFIVGYSLSFGPTLNGIIGDPLYYSFMNNIDPGTMYTGNKGGIPLLVHFVYQMMFAIITPALITGAFANRVNFPAYLVFLTFWTLLVYCPFVHMIWSPQGMLAKWGVVDFAGGIVVHATAGFAALASALYVGKRTVASDGTHNIPYIALGAGLLWFGWYGFNAGSELQVNTVTVSAFVTTDIAAAFAAVTWFVIEKIRTGKPKLVGFLTGAVAGLATITPAAGYVSIQSAALIGIIASFVCYFVVLLVRRYLDDALDVFGVHGVNQRGRHGRCGRFNSSRPGRSHFHRWQSSGHGS

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:0072488 The process in which ammonium is transported across a membrane. Ammonium is the cation NH4+.
  • GO:0008519 Enables the energy-independent facilitated diffusion of ammonium through a transmembrane aqueous pore or channel.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

37 records
Show feature table
Start End DB Term Name
257 267 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
138 159 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
132 137 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
136 158 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
225 235 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
173 195 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 16 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
112 131 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
206 224 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
171 194 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
207 224 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
195 205 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
58 80 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
7 328 Gene3D G3DSA:1.10.3430.10 Ammonium transporter AmtB like domains
7 328 InterPro IPR029020 Ammonium/urea transporter
236 256 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
17 37 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
12 328 PANTHER PTHR43029 AMMONIUM TRANSPORTER MEP2
12 328 InterPro IPR001905 Ammonium transporter
15 37 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
234 256 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
17 327 Pfam PF00909 Ammonium Transporter Family
17 327 InterPro IPR024041 Ammonium transporter AmtB-like domain
288 292 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
12 328 SUPERFAMILY SSF111352 Ammonium transporter
268 287 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
160 170 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
293 311 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
268 290 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
68 111 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
172 197 ProSitePatterns PS01219 Ammonium transporters signature.
172 197 InterPro IPR018047 Ammonium transporter, conserved site
38 48 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
107 129 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
294 311 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
312 359 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
49 67 Phobius TRANSMEMBRANE 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
0.651
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Surrounding area
Pocket 2 P2Rank #2
0.3
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Surrounding area
Pocket 3 P2Rank #3
0.232
Show in viewer
Surrounding area
Pocket 4 P2Rank #4
0.207
Show in viewer
Surrounding area
Pocket 5 P2Rank #5
0.196
Show in viewer
Surrounding area

Binding pockets · FPocket

Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4

Pocket 1 FPocket #3
0.435
Show in viewer
Surrounding area
All structural evidence 0 experimental · 1 predicted

Structural evidence

0 + 1

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
ColabFold VK055_4196
ColabFold full sequence Viewing

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.

58 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 8 records from similar proteins
Structural ligands 6 0 loaded crystals
Measured bioactivity 2 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
DMU PDB via homolog 482.6 Da · LogP -1.23 · TPSA 178.5 Open detail RCSB PDB
LMT PDB via homolog Detail RCSB PDB
NH4 PDB via homolog Detail RCSB PDB
NME PDB via homolog Detail RCSB PDB
XE 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
DMU RCSB PDB Q59UP8 482.6 Da LogP -1.23 TPSA 178.5 2 viol. ✓ Clean CCCCCCCCCCO[C@H]1[C@@H]([C@H]([C@@H]([C@H](O1)C…
LMT RCSB PDB Q1Q357 510.6 Da LogP -0.45 TPSA 178.5 3 viol. ✓ Clean CCCCCCCCCCCCO[C@H]1[C@@H]([C@H]([C@@H]([C@H](O1…
NH4 RCSB PDB Q1Q357 18.0 Da LogP 0.38 TPSA 36.5 ✓ Ro5 ✓ Clean [NH4+]
NME RCSB PDB P69681 31.1 Da LogP -0.43 TPSA 26.0 ✓ Ro5 ✓ Clean CN
XE RCSB PDB O29285 131.3 Da LogP 0.00 TPSA 0.0 ✓ Ro5 ✓ Clean [Xe]
ZDM RCSB PDB Q1Q357 468.5 Da LogP -1.62 TPSA 178.5 2 viol. ✓ Clean CCCCCCCCCO[C@H]1[C@@H]([C@H]([C@@H]([C@H](O1)CO…

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.