KpATCC43816 Protein target profile

cadmium-translocating P-type ATPase

Accession: VK055_3635

Gene: cadA2 AIK82190.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GYK0
Length 679
Pocket druggability (P2Rank · AlphaFold DB model) 0.736
Direct ligand evidence 0 56 total records
Functional annotation 1 EC 11 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 (%)
42.767 Lower values reduce human off-target concern.
Human E-value
4.26e-27
Gut microbiome similarity
2.5% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
86.79 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) 0.736
Structure A0A0H3GYK0
Pocket Pocket 1
Druggability (FPocket) 0.91
Structure A0A0H3GYK0
Pocket Pocket 58
ColabFold model
P2Rank 0.882 · Pocket 1
FPocket 0.852 · Pocket 34
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 120 / 4744 genomes with a hit
Prevalence 2.5%

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.

MDCAACARKVETAVRQVPGVSQVQVLFATEKLLVNAEGDVRAQVENAVRQAGYTLRDADAPAAEQTRGSLLRDNLPLLTLVIMMALSWGLEQANHPAGQLAFIATTLVGLWPVARQALRLIKSGSWFAIETLMSVAAIGALFIGATAEAAMVLLLFLIGERLEGWAASRARQGVSALMALKPDTAIRLRNGVRETVAQRDLRPGDVIEVAAGGRLPADGQLLSPFASFDESALTGESVPVERQAGERVAAGATSVDRLVQLTVISEPGDSAIDRILKLIEEAEERRAPIERFIDRFSRIYTPAIMVVALLVAIVPPLFFASAWLPWIYKGLTLLLIGCPCALVISTPAAITSGLAVAARRGALIKGGAALEQLGQVRQVAFDKTGTLTVGQPQVTSVIATAEVDDNALLALAAAVEQGSSHPLAQAIVREAQRRQLSIPLASGQRALAGSGIEAEVNGSRILICAASKAAPAEHEAQIQQLESAGQTVVLVMRGETLLGILALRDTLRDDARQAVDALHQLGVQGVILTGDNPRAAAAIASELGLEFRAGLLPADKVNAVIALNADAPLAMVGDGINDAPAMKAATIGIAMGSGTDVALETADAALTHNRLTGLAQMISLARATHANIRQNIAIALGLKGIFLVTTLLGLTGLWLAVLADTGATVLVTANALRLLRKKL

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 11 GO

Subcellular localization

Localization
CytoplasmicMembrane

Enzyme Commission (EC)

1

Gene Ontology (GO)

11
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0006812 The directed movement of a monoatomic cation, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Monatomic cations (also called simple cations) are positively charged ions consisting of exactly one atom.
  • GO:0005215 Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, accross or in between cells.
  • GO:0046872 Binding to a metal ion.
  • GO:0000166 Binding to a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
  • GO:0019829 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + cation(out) = ADP + phosphate + cation(in).
  • GO:0016887 Catalysis of the reaction: ATP + H2O = ADP + H+ phosphate. ATP hydrolysis is used in some reactions as an energy source, for example to catalyze a reaction or drive transport against a concentration gradient.
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
  • GO:0015086 Enables the transfer of cadmium (Cd) ions from one side of a membrane to the other.
  • GO:0016463 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + Zn2+(in) = ADP + phosphate + Zn2+(out).

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

59 records
Show feature table
Start End DB Term Name
676 679 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 56 ProSiteProfiles PS50846 Heavy-metal-associated domain profile.
1 56 InterPro IPR006121 Heavy metal-associated domain, HMA
632 650 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
333 355 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
74 90 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
651 655 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
93 115 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
129 676 NCBIfam TIGR01512 cadmium family heavy metal-translocating P-type ATPase
296 318 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
379 585 Pfam PF00702 haloacid dehalogenase-like hydrolase
97 114 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 54 Pfam PF00403 Heavy-metal-associated domain
1 54 InterPro IPR006121 Heavy metal-associated domain, HMA
362 624 SFLD SFLDS00003 Haloacid Dehalogenase
656 675 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
115 133 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
135 157 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
382 388 ProSitePatterns PS00154 E1-E2 ATPases phosphorylation site.
382 388 InterPro IPR018303 P-type ATPase, phosphorylation site
160 298 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 61 Gene3D G3DSA:3.30.70.100 -
325 329 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 73 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
180 360 Pfam PF00122 E1-E2 ATPase
91 96 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
173 283 Gene3D G3DSA:2.70.150.10 -
1 56 CDD cd00371 HMA
152 651 NCBIfam TIGR01494 HAD-IC family P-type ATPase
152 651 InterPro IPR001757 P-type ATPase
134 159 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 678 PANTHER PTHR48085 CADMIUM/ZINC-TRANSPORTING ATPASE HMA2-RELATED
182 279 SUPERFAMILY SSF81653 Calcium ATPase, transduction domain A
182 279 InterPro IPR008250 P-type ATPase, A domain superfamily
229 243 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
521 531 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
595 607 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
572 591 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
380 394 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
499 510 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
1 56 SUPERFAMILY SSF55008 HMA, heavy metal-associated domain
1 56 InterPro IPR036163 Heavy metal-associated domain superfamily
129 674 NCBIfam TIGR01525 heavy metal translocating P-type ATPase
129 674 InterPro IPR027256 P-type ATPase, subfamily IB
391 507 Gene3D G3DSA:3.40.1110.10 -
391 507 InterPro IPR023299 P-type ATPase, cytoplasmic domain N
362 624 SFLD SFLDF00027 p-type atpase
362 624 InterPro IPR044492 P-type ATPase, haloacid dehalogenase domain
131 660 SUPERFAMILY SSF81665 Calcium ATPase, transmembrane domain M
131 660 InterPro IPR023298 P-type ATPase, transmembrane domain superfamily
358 631 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
85 678 CDD cd07546 P-type_ATPase_Pb_Zn_Cd2-like
379 672 SUPERFAMILY SSF56784 HAD-like
379 672 InterPro IPR036412 HAD-like superfamily
299 324 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
371 622 Gene3D G3DSA:3.40.50.1000 -
371 622 InterPro IPR023214 HAD superfamily
330 357 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
636 658 TMHMM TMhelix 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
0.736
Likely same site as FPocket 60 1.2 Å 21 shared residues 88% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.605
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Surrounding area
Pocket 3 P2Rank #3
0.492
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Surrounding area
Pocket 4 P2Rank #4
0.445
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Surrounding area
Pocket 5 P2Rank #5
0.273
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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 #58
0.91
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Surrounding area
Pocket 2 FPocket #9
0.606
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Surrounding area
Pocket 3 FPocket #60
0.232 Unusual size
Likely same site as P2Rank 1 1.2 Å 21 shared residues 88% 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_A0A0H3GYK0
AlphaFold DB full sequence Viewing
ColabFold VK055_3635
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.

56 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 6 records from similar proteins
Structural ligands 6 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
9UX PDB via homolog 292.0 Da · LogP -0.02 · TPSA 34.1 Open detail RCSB PDB
ACP PDB via homolog Detail RCSB PDB
ALF PDB via homolog Detail RCSB PDB
BEF PDB via homolog Detail RCSB PDB
MGF 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
9UX RCSB PDB P35670 292.0 Da LogP -0.02 TPSA 34.1 ✓ Ro5 ✓ Clean O=[MoH2]1S[MoH2](=O)S1
ACP RCSB PDB O29777 505.2 Da LogP -1.52 TPSA 269.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
ALF RCSB PDB Q3YW59 103.0 Da LogP 1.30 TPSA 0.0 ✓ Ro5 ✓ Clean F[Al-](F)(F)F
BEF RCSB PDB Q3YW59 66.0 Da LogP 0.88 TPSA 0.0 ✓ Ro5 ✓ Clean [Be-](F)(F)F
MGF RCSB PDB Q5ZWR1 81.3 Da LogP 0.88 TPSA 0.0 ✓ Ro5 ✓ Clean F[Mg-](F)F
NH4 RCSB PDB Q9SZC9 18.0 Da LogP 0.38 TPSA 36.5 ✓ Ro5 ✓ Clean [NH4+]

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.