KpKP13 Protein target profile

Lead, cadmium, zinc and mercury-transporting ATPase

Accession: KP13_31570

Gene: zntA AHE42244.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GYK0
Length 736
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 (%)
43.312 Lower values reduce human off-target concern.
Human E-value
3.9300000000000005e-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 (%)
77.174 Higher values support similarity to known essential genes.
DEG E-value
0.0 Smaller values mean stronger essential-gene similarity.

Structure confidence

ColabFold pLDDT
83.83 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 0.85 · Pocket 1
FPocket 0.941 · Pocket 29
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 120 / 4744 genomes with a hit
Prevalence 2.5%

Sequence

Primary amino-acid sequence viewer.

MSTPDAQDKKVPQFSSFTMRPATAPAESCCTDHACATESAPAAEALSDARYSWQVDGMDCAACARKVETAVRQVPGVSQVQVLFATEKLLVNAEGDVRAQVENAVRQAGYTLRDADAPAAEQTRGSLLRDNLPLLTLVIMMALSWGLEQANHPAGQLAFIATTLVGLWPVARQALRLIKSGSWFAIETLMSVAAIGALFIGATAEAAMVLLLFLIGERLEGWAASRARQGVSALMALKPDTAIRLRNGVRETVAQRDLRPGDVIEVAAGGRLPADGQLLSPFASFDESALTGESVPVERQAGERVAAGATSVDRLVQLTVISEPGDSAIDRILKLIEEAEERRAPIERFIDRFSRIYTPAIMVVALLVAIVPPLFFASAWLPWIYKGLTLLLIGCPCALVISTPAAITSGLAVAARRGALIKGGAALEQLGQVRQVAFDKTGTLTVGQPQVTSVIATAEVDDNALLALAAAVEQGSSHPLAQAIVREAQRRQLSIPLASGQRALAGSGIEAEVNGSRILICAASKAAPAEHEAQIQQLESAGQTVVLVMRGETLLGILALRDTLRDDARQAVDALHQLGVQGVILTGDNPRAAAAIASELGLEFRAGLLPADKVNAVIALNADAPLAMVGDGINDAPAMKAATIGIAMGSGTDVALETADAALTHNRLTGLAQMISLARATHANIRQNIAIALGLKGIFLVTTLLGLTGLWLAVLADTGATVLVTANALRLLRKKL

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: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: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:0046872 Binding to a metal ion.
  • 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:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • 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: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.

64 records
Show feature table
Start End DB Term Name
733 736 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
689 707 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
194 216 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
436 642 Pfam PF00702 haloacid dehalogenase-like hydrolase
54 113 CDD cd00371 HMA
54 113 InterPro IPR006121 Heavy metal-associated domain, HMA
142 735 CDD cd07546 P-type_ATPase_Pb_Zn_Cd2-like
51 735 PANTHER PTHR48085 CADMIUM/ZINC-TRANSPORTING ATPASE HMA2-RELATED
230 340 Gene3D G3DSA:2.70.150.10 -
55 84 ProSitePatterns PS01047 Heavy-metal-associated domain.
55 84 InterPro IPR017969 Heavy-metal-associated, conserved site
226 355 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
448 564 Gene3D G3DSA:3.40.1110.10 -
448 564 InterPro IPR023299 P-type ATPase, cytoplasmic domain N
439 445 ProSitePatterns PS00154 E1-E2 ATPases phosphorylation site.
439 445 InterPro IPR018303 P-type ATPase, phosphorylation site
437 451 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
629 648 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
286 300 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
578 588 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
556 567 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
652 664 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
356 381 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
387 414 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
209 708 NCBIfam TIGR01494 HAD-IC family P-type ATPase
209 708 InterPro IPR001757 P-type ATPase
1 130 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
131 147 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
186 733 NCBIfam TIGR01512 cadmium family heavy metal-translocating P-type ATPase
49 113 ProSiteProfiles PS50846 Heavy-metal-associated domain profile.
49 113 InterPro IPR006121 Heavy metal-associated domain, HMA
148 152 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
693 715 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
419 681 SFLD SFLDS00003 Haloacid Dehalogenase
47 118 Gene3D G3DSA:3.30.70.100 -
153 171 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
415 688 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
51 113 SUPERFAMILY SSF55008 HMA, heavy metal-associated domain
51 113 InterPro IPR036163 Heavy metal-associated domain superfamily
201 205 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
188 717 SUPERFAMILY SSF81665 Calcium ATPase, transmembrane domain M
188 717 InterPro IPR023298 P-type ATPase, transmembrane domain superfamily
54 111 Pfam PF00403 Heavy-metal-associated domain
54 111 InterPro IPR006121 Heavy metal-associated domain, HMA
172 182 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
419 681 SFLD SFLDF00027 p-type atpase
419 681 InterPro IPR044492 P-type ATPase, haloacid dehalogenase domain
47 118 FunFam G3DSA:3.30.70.100:FF:000029 Zinc/cadmium/lead-transporting P-type ATPase
206 225 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
428 679 Gene3D G3DSA:3.40.50.1000 -
428 679 InterPro IPR023214 HAD superfamily
353 375 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
183 200 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
436 729 SUPERFAMILY SSF56784 HAD-like
436 729 InterPro IPR036412 HAD-like superfamily
708 712 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
186 731 NCBIfam TIGR01525 heavy metal translocating P-type ATPase
186 731 InterPro IPR027256 P-type ATPase, subfamily IB
239 336 SUPERFAMILY SSF81653 Calcium ATPase, transduction domain A
239 336 InterPro IPR008250 P-type ATPase, A domain superfamily
237 417 Pfam PF00122 E1-E2 ATPase
382 386 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
390 412 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
713 732 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.

Download VMD script Full viewer

Loading 3D structure...

Drag to rotate — click the view, then scroll to zoom.

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
Show in viewer
Surrounding area
Pocket 2 P2Rank #2
0.605
Show in viewer
Surrounding area
Pocket 3 P2Rank #3
0.492
Show in viewer
Surrounding area
Pocket 4 P2Rank #4
0.445
Show in viewer
Surrounding area
Pocket 5 P2Rank #5
0.273
Show in viewer
Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #58
0.91
Show in viewer
Surrounding area
Pocket 2 FPocket #9
0.606
Show in viewer
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
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_A0A0H3GYK0
AlphaFold DB full sequence Viewing
ColabFold KP13_31570
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.