KpATCC43816 Protein target profile

H(+)/Cl(-) exchange transporter ClcA

Accession: VK055_2395

Gene: AIK80992.1 clcA 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GNH8
Length 472
Pocket druggability (P2Rank · AlphaFold DB model) 0.818
Direct ligand evidence 0 60 total records
Functional annotation 0 EC 7 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 (%)
32.716 Lower values reduce human off-target concern.
Human E-value
4.31e-10
Gut microbiome similarity
2.6% 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
91.26 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) 0.818
Structure A0A0H3GNH8
Pocket Pocket 1
Druggability (FPocket) 0.581
Structure A0A0H3GNH8
Pocket Pocket 28
ColabFold model
P2Rank 0.822 · Pocket 1
FPocket 0.714 · Pocket 7
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 123 / 4744 genomes with a hit
Prevalence 2.6%

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.

MKAETPSFEAHQFVRVRRGDAVRRLIQRDKTPLAVLFMAAVVGTLAGLVGVAFEKSVNWVQNQRIGALAQVADHWYLVWPLAFILSALLAMVGYFLVRRFAPEAGGSGIPEIEGALEELRPVRWWRVLPVKFVGGMGTLGAGMVLGREGPMVQLGGNIGRMVLDVFRMRSPEARHTLLATGAASGLSAAFNAPLAGILFIIEEMRPQFRYNLISIKAVFTGVIMSSIVFRIFNGEAAIIEVGKLSNAPVNTLWLYLVLGMLFGCFGPLFNFLVLRTQDLFQRIHGGNIKKWVLIGGLIGGLCGLLGLMQPSAVGGGFNLIPIAAAGNFSVGLLLFIFIARVVTTLICFSSGAPGGIFAPMLALGTLLGTAFGMAAIPLFPAYHLDAGTFAIAGMGALLAASVRAPLTGIVLVLEMTDNYQLILPMIITCLGATLLAQFLGGKPLYSTILQRTLAKQEAEQAAKAQQAPRENT

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

7 GO

Subcellular localization

Localization
CytoplasmicMembrane

Gene Ontology (GO)

7
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0006821 The directed movement of chloride into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
  • GO:0005247 Enables the transmembrane transfer of a chloride ion by a voltage-gated channel. A voltage-gated channel is a channel whose open state is dependent on the voltage across the membrane in which it is embedded.
  • GO:0055085 The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other.
  • 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:0015108 Enables the transfer of chloride ions from one side of a membrane to the other.
  • GO:0015297 Enables the active transport of a solute across a membrane by a mechanism whereby two or more species are transported in opposite directions in a tightly coupled process not directly linked to a form of energy other than chemiosmotic energy. The reaction is: solute A(out) + solute B(in) = solute A(in) + solute B(out).

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

54 records
Show feature table
Start End DB Term Name
54 75 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
414 419 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
418 440 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
42 450 CDD cd01031 EriC
1 32 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
320 342 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
98 127 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
391 413 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
16 461 Gene3D G3DSA:1.10.3080.10 Clc chloride channel
388 413 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
91 436 Pfam PF00654 Voltage gated chloride channel
91 436 InterPro IPR001807 Chloride channel, voltage gated
76 97 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
213 232 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
291 308 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
33 53 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
3 469 Hamap MF_01128 H(+)/Cl(-) exchange transporter ClcA [clcA].
3 469 InterPro IPR023861 Chloride channel, ClcA
128 146 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
354 376 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
22 453 SUPERFAMILY SSF81340 Clc chloride channel
22 453 InterPro IPR014743 Chloride channel, core
210 232 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
31 53 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
124 146 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
420 439 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
252 271 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
147 176 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
360 382 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
18 453 PANTHER PTHR45711 CHLORIDE CHANNEL PROTEIN
16 461 FunFam G3DSA:1.10.3080.10:FF:000005 H(+)/Cl(-) exchange transporter ClcA
349 359 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
102 119 PRINTS PR00762 Chloride channel signature
102 119 InterPro IPR001807 Chloride channel, voltage gated
352 372 PRINTS PR00762 Chloride channel signature
352 372 InterPro IPR001807 Chloride channel, voltage gated
183 202 PRINTS PR00762 Chloride channel signature
183 202 InterPro IPR001807 Chloride channel, voltage gated
387 403 PRINTS PR00762 Chloride channel signature
387 403 InterPro IPR001807 Chloride channel, voltage gated
405 424 PRINTS PR00762 Chloride channel signature
405 424 InterPro IPR001807 Chloride channel, voltage gated
202 212 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
233 251 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
291 310 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
252 274 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
309 327 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
272 290 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
383 387 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
440 472 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
328 348 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
177 201 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
179 201 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
75 97 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
0.818
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Surrounding area
Pocket 2 P2Rank #2
0.676
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Surrounding area
Pocket 3 P2Rank #3
0.048
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Surrounding area
Pocket 4 P2Rank #4
0.039
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Surrounding area
Pocket 5 P2Rank #5
0.01
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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 #28
0.581
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Surrounding area
Pocket 2 FPocket #8
0.568
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Surrounding area
Pocket 3 FPocket #9
0.247
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Surrounding area
Residue sets
UniProt: Binding site:138-138
UniProt: Binding site:387-387
UniProt: Binding site:388-388
UniProt: Binding site:476-476
UniProt: Site:179-179 Mediates proton transfer from the outer aqueous phase to the interior of the protein; involved in linking H(+) and Cl(-) transport
UniProt: Site:234-234 Mediates proton transfer from the protein to the inner aqueous phase
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_A0A0H3GNH8
AlphaFold DB full sequence Viewing
ColabFold VK055_2395
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.

60 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 10 records from similar proteins
Structural ligands 4 0 loaded crystals
Measured bioactivity 6 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
BXA PDB via homolog 138.9 Da · LogP 0.47 · TPSA 37.3 Open detail RCSB PDB
MYS PDB via homolog Detail RCSB PDB
SEK PDB via homolog Detail RCSB PDB
Y01 PDB via homolog Detail RCSB PDB
CHEMBL6028327 ChEMBL via homolog · pchembl 8.70 (~2.0 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
BXA RCSB PDB P37019 138.9 Da LogP 0.47 TPSA 37.3 ✓ Ro5 ✓ Clean C(C(=O)O)Br
MYS RCSB PDB Q8ZRP8 212.4 Da LogP 6.10 TPSA 0.0 1 viol. ✓ Clean CCCCCCCCCCCCCCC
SEK RCSB PDB P37019 105.0 Da LogP -0.36 TPSA 23.8 ✓ Ro5 ✓ Clean C(#N)[Se-]
Y01 RCSB PDB E1B792 486.7 Da LogP 7.80 TPSA 63.6 1 viol. ✓ Clean CC(C)CCC[C@@H](C)[C@H]1CC[C@@H]2[C@@]1(CC[C@H]3…

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.