KpKP13 Protein target profile

Copper-exporting P-type ATPase A

Accession: KP13_03607

Gene: AHE45950.1 copA 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GJB4
Length 851
Pocket druggability (P2Rank · AlphaFold DB model) 0.971
Direct ligand evidence 0 56 total records
Functional annotation 1 EC 16 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 (%)
41.284 Lower values reduce human off-target concern.
Human E-value
1.09e-10
Gut microbiome similarity
2.4% 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
85.21 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) 0.971
Structure A0A0H3GJB4
Pocket Pocket 1
Druggability (FPocket) 0.82
Structure A0A0H3GJB4
Pocket Pocket 33
ColabFold model
P2Rank 0.758 · Pocket 1
FPocket 0.965 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 116 / 4744 genomes with a hit
Prevalence 2.4%

Cross-references

External database identifiers for this protein, its structures, ligands, and metabolic reactions.

Sequence

Primary amino-acid sequence viewer.

MKEWVWSIVDRKIIQELFMSNTIDLTLDGLSCGHCVKRVKESLEQRPDVEQAEVTLTEAHVTGSASAQALIDTVKQAGYGAELSHPKAKPLAESSIPSEALTAATPELPAAHDEDDSQQLLINGMSCASCVSRVQNALAAVPGVSQARVNLAERTALVMGSASAAELVQAVEKAGYGAEAIEDDLQRRERQQETALATMKRFRWQAIVALLVGVPVMVWGMIGDNMMVSDDNRSLWLVIGLVTLAVMVFAGDHFYRSAWKSLKNGTATMDTLVALGTGVAWLYSMSVNLWPQWFPMEARHLYYEASAMIIGLINLGHMLEARARQRSSKALEKLLDLTPPSARVVTPEGEKDLPLAEVQAGMTLRLTTGDRVPVDGMISQGEAWFDEAMLTGEPVPQQKGDGDAIHAGTVVQDGSVLFTASAVGSQTTLARIIRMVRQAQSSKPEIGQLADKISAVFVPAVVVIALISAAIWYFFGPAPQIVYTLVIATTVLIIACPCALGLATPMSIISGVGRAAEYGVLVRDADALQRASELDTLVFDKTGTLTEGKPQVVAVKTFAGVDEHTALRLAAALEQGSSHPLARAILDKAADGPLPEVSGFRTLRGLGVNGEAEGHRLLLGNQALLNEQHINTAEVESEMTAQASRGATPVLLAVDGQAAALFAIRDPLREDSVDALARLHRQGYRLVMLTGDNPTTAKAIAKEAGIDEVIAGVLPDGKADAIKRLQSQGHKVAMVGDGINDAPALAQADVGIAMGGGSDVAIETAAITLMRHSLHGVADALAISKATLRNMKQNLLGAFVYNSLGIPIAAGILWPLTGTLLNPVVAGAAMALSSITVVSNANRLLRFKPKE

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 16 GO

Subcellular localization

Localization
CytoplasmicMembrane

Enzyme Commission (EC)

1

Gene Ontology (GO)

16
  • 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: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: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:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • 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:0005507 Binding to a copper (Cu) ion.
  • GO:0043682 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + Cu2+(in) = ADP + phosphate + Cu2+(out).
  • GO:0140581 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + Cu+(in) = ADP + phosphate + Cu+(out).
  • GO:0060003 The directed movement of copper ions out of a cell or organelle.
  • GO:0055070 Any process involved in the maintenance of an internal steady state of copper ions within an organism or cell.
  • GO:0075523 A process which occurs during viral translation, which involves a translational recoding mechanism called programmed ribosomal frameshifting. This causes the ribosome to alter its reading of the mRNA to an a different open reading frame to produce alternate viral proteins.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

87 records
Show feature table
Start End DB Term Name
1 201 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
453 475 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
269 844 NCBIfam TIGR01525 heavy metal translocating P-type ATPase
269 844 InterPro IPR027256 P-type ATPase, subfamily IB
256 266 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
158 178 PRINTS PR00943 Copper-transporting ATPase signature
254 273 PRINTS PR00943 Copper-transporting ATPase signature
521 536 PRINTS PR00943 Copper-transporting ATPase signature
712 729 PRINTS PR00943 Copper-transporting ATPase signature
459 473 PRINTS PR00943 Copper-transporting ATPase signature
22 847 PANTHER PTHR43520 ATP7, ISOFORM B
267 289 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
301 319 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
116 179 ProSiteProfiles PS50846 Heavy-metal-associated domain profile.
116 179 InterPro IPR006121 Heavy metal-associated domain, HMA
339 436 SUPERFAMILY SSF81653 Calcium ATPase, transduction domain A
339 436 InterPro IPR008250 P-type ATPase, A domain superfamily
453 475 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
819 841 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
530 785 Gene3D G3DSA:3.40.50.1000 -
530 785 InterPro IPR023214 HAD superfamily
820 841 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
303 798 SUPERFAMILY SSF81665 Calcium ATPase, transmembrane domain M
303 798 InterPro IPR023298 P-type ATPase, transmembrane domain superfamily
505 794 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
202 222 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
519 786 SFLD SFLDF00027 p-type atpase
519 786 InterPro IPR044492 P-type ATPase, haloacid dehalogenase domain
540 546 ProSitePatterns PS00154 E1-E2 ATPases phosphorylation site.
540 546 InterPro IPR018303 P-type ATPase, phosphorylation site
233 250 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
480 502 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
549 668 FunFam G3DSA:3.40.1110.10:FF:000036 Copper-exporting P-type ATPase
119 179 CDD cd00371 HMA
119 179 InterPro IPR006121 Heavy metal-associated domain, HMA
324 440 FunFam G3DSA:2.70.150.10:FF:000020 Copper-exporting P-type ATPase A
842 851 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
21 82 ProSiteProfiles PS50846 Heavy-metal-associated domain profile.
21 82 InterPro IPR006121 Heavy metal-associated domain, HMA
22 84 Gene3D G3DSA:3.30.70.100 -
22 84 FunFam G3DSA:3.30.70.100:FF:000032 Copper-exporting P-type ATPase
536 841 SUPERFAMILY SSF56784 HAD-like
536 841 InterPro IPR036412 HAD-like superfamily
795 814 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
223 233 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
118 182 SUPERFAMILY SSF55008 HMA, heavy metal-associated domain
118 182 InterPro IPR036163 Heavy metal-associated domain superfamily
337 517 Pfam PF00122 E1-E2 ATPase
549 668 Gene3D G3DSA:3.40.1110.10 -
549 668 InterPro IPR023299 P-type ATPase, cytoplasmic domain N
290 300 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
122 176 Pfam PF00403 Heavy-metal-associated domain
122 176 InterPro IPR006121 Heavy metal-associated domain, HMA
26 79 Pfam PF00403 Heavy-metal-associated domain
26 79 InterPro IPR006121 Heavy metal-associated domain, HMA
308 812 NCBIfam TIGR01494 HAD-IC family P-type ATPase
308 812 InterPro IPR001757 P-type ATPase
535 749 Pfam PF00702 haloacid dehalogenase-like hydrolase
386 400 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
735 754 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
758 770 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
682 692 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
660 671 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
538 552 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature
119 181 Gene3D G3DSA:3.30.70.100 -
320 452 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
324 440 Gene3D G3DSA:2.70.150.10 -
206 223 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
119 181 FunFam G3DSA:3.30.70.100:FF:000030 Copper-exporting P-type ATPase
519 786 SFLD SFLDS00003 Haloacid Dehalogenase
204 846 CDD cd02094 P-type_ATPase_Cu-like
21 85 SUPERFAMILY SSF55008 HMA, heavy metal-associated domain
21 85 InterPro IPR036163 Heavy metal-associated domain superfamily
300 319 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
795 814 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
250 844 NCBIfam TIGR01511 copper-translocating P-type ATPase
234 255 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
122 151 ProSitePatterns PS01047 Heavy-metal-associated domain.
122 151 InterPro IPR017969 Heavy-metal-associated, conserved site
27 56 ProSitePatterns PS01047 Heavy-metal-associated domain.
27 56 InterPro IPR017969 Heavy-metal-associated, conserved site
476 480 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
481 504 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
271 290 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
24 82 CDD cd00371 HMA
24 82 InterPro IPR006121 Heavy metal-associated domain, HMA
815 819 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.

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
0.971
Show in viewer
Surrounding area
Pocket 2 P2Rank #2
0.434
Show in viewer
Surrounding area
Pocket 3 P2Rank #3
0.26
Show in viewer
Surrounding area
Pocket 4 P2Rank #4
0.249
Show in viewer
Surrounding area
Pocket 5 P2Rank #5
0.234
Show in viewer
Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #33
0.82 Unusual size
Show in viewer
Surrounding area
Pocket 2 FPocket #42
0.306
Show in viewer
Surrounding area
Pocket 3 FPocket #24
0.292 Unusual size
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_A0A0H3GJB4
AlphaFold DB full sequence Viewing
ColabFold KP13_03607
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.