KpATCC43816 Protein target profile

urea transporter

Accession: VK055_4189

Gene: yut AIK82734.1 3D evidence: ColabFold model Metabolism Not in network
Length 298
Pocket druggability (P2Rank · ColabFold model) 0.947
Direct ligand evidence 0 106 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 (%)
42.5 Lower values reduce human off-target concern.
Human E-value
2.9e-08
Gut microbiome similarity
0.4% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
N
DEG identity (%)
25.692 Higher values support similarity to known essential genes.

Structure confidence

ColabFold pLDDT
92.45 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) 0.947
Structure CB_VK055_4189
Pocket Pocket 1
Druggability (FPocket) 0.77
Structure CB_VK055_4189
Pocket Pocket 9
ColabFold model
P2Rank 0.947 · Pocket 1
FPocket 0.77 · Pocket 9
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 18 / 4744 genomes with a hit
Prevalence 0.4%

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.

MFQNNPLTGLIFFIAIFIAAYGEGNPAAAYGCVLGTVVATFTGMFVNDRTSWLAGLYGYNGCLVGVALPTFLSVTPQLWGCIITGSIVSVIATVSIADILKTWKVAALTAPFVLTTWVVLLASYAFSGLDASGLSVPELPHPLVSAPAGGLFNGHIFATVLHGVSEVYLFSSVAAGGLFVVGLAVASRWAAIFAIGGSLLAVLTASLLGANTTGTDSGLYAFSAVLTAIALGSSFNKPSWRVLGYTFIGVIFTVFVQGAMNTLLAPVGIPTLTMPFVLASWLFLVPNKDIMPSHRQGH

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:0071918 The process in which urea, the water-soluble compound H2N-CO-NH2, is transported from one side of a membrane to the other by means of some agent such as a transporter or pore.
  • GO:0015204 Enables the transfer of urea from one side of a membrane to the other. Urea is the water soluble compound H2N-CO-NH2.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

42 records
Show feature table
Start End DB Term Name
23 27 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
212 216 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 290 PANTHER PTHR10464 UREA TRANSPORTER
1 290 InterPro IPR004937 Urea transporter
160 182 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 298 PIRSF PIRSF016502 Urea_transporter
1 298 InterPro IPR004937 Urea transporter
107 126 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
217 235 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
28 46 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
192 211 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
127 166 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
5 22 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
47 52 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
266 285 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
263 285 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
261 265 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
101 106 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
218 235 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
53 71 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 22 SignalP_EUK SignalP-TM SignalP-TM
242 259 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
77 100 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 287 Pfam PF03253 Urea transporter
1 287 InterPro IPR004937 Urea transporter
7 22 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
52 74 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
72 76 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
105 127 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
242 260 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
186 191 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
286 298 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 285 NCBIfam TIGR03441 urea transporter
1 285 InterPro IPR017807 Urea transporter, bacteria
167 185 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
78 100 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
236 241 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 296 Gene3D G3DSA:1.10.3430.10 Ammonium transporter AmtB like domains
1 296 InterPro IPR029020 Ammonium/urea transporter
26 45 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
189 208 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.

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
0.947
Likely same site as FPocket 4 2.6 Å 24 shared residues 92% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.388
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Surrounding area
Pocket 3 P2Rank #3
0.161
Likely same site as FPocket 9 2.0 Å 10 shared residues 100% of smaller site
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Surrounding area
Pocket 4 P2Rank #4
0.027
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Surrounding area
Pocket 5 P2Rank #5
0.026
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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 #9
0.77
Likely same site as P2Rank 3 2.0 Å 10 shared residues 100% of smaller site
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Surrounding area
Pocket 2 FPocket #4
0.756 Unusual size
Likely same site as P2Rank 1 2.6 Å 24 shared residues 92% of smaller site
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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_4189
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.

106 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 56 records from similar proteins
Structural ligands 1 0 loaded crystals
Measured bioactivity 55 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
MMU PDB via homolog 88.1 Da · LogP -0.45 · TPSA 41.1 Open detail RCSB PDB
CHEMBL1394231 ChEMBL via homolog · pchembl 7.96 (~11.0 nM) Detail ChEMBL
CHEMBL2165788 ChEMBL via homolog · pchembl 7.85 (~14.1 nM) Detail ChEMBL
CHEMBL1590659 ChEMBL via homolog · pchembl 7.50 (~31.6 nM) Detail ChEMBL
CHEMBL2391344 ChEMBL via homolog · pchembl 7.42 (~38.0 nM) 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
MMU RCSB PDB Q72CX3 88.1 Da LogP -0.45 TPSA 41.1 ✓ Ro5 ✓ Clean CNC(=O)NC

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.