KpATCC43816 Protein target profile

sensory histidine kinase in two-component regulatory system with DcuR, regulator of anaerobic fumarate respiration product

Accession: VK055_0951

Gene: AIK79574.1 yjdH 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GPD8
Length 513
Pocket druggability (P2Rank · AlphaFold DB model) 0.77
Direct ligand evidence 0 54 total records
Functional annotation 0 EC 5 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
No hit
Gut microbiome similarity
1.6% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
85.25 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) 0.77
Structure A0A0H3GPD8
Pocket Pocket 1
Druggability (FPocket) 0.456
Structure A0A0H3GPD8
Pocket Pocket 43
ColabFold model
P2Rank 0.753 · Pocket 1
FPocket 0.464 · Pocket 36
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 75 / 4744 genomes with a hit
Prevalence 1.6%

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.

MIGSVIGAVLLLVYALWYMQISNATRDGLKETALAVARTMADMPQVKRGLEAPPQQQIIQPLAQAITRRNDLLYAIVTDMQGIRYSHPDSSIIGKPFIGHDIQPTLQGKENVAINHGVLAPALRVFTPVFNERHQQIGVVVVGISLSKVDEQIANSRWDVLLTILFSALVCALGTWSLVRGLKRVLLGLEPHEISTQFQQRQAMLHALKEGVVAVDAHGEVNLINPAAEEILFSGPDKTLVHSPLLDDLQTVLQSGEPMYDRELGCNGLLLIGNTVPIRSQGAVVGAICTFRDKTEVSQLLQRLDGMMSYVDALRTTSHEFMNKLHVILGLLNMKSYGKLEEYVLQTAHRYQADIGDIQHRIKSPVVAGFLISKIQRATECGFTLTLAEESLVPDCPNEKQVTVLVTVLGNLIENALDAMSGQAEGEIGLLLHYQDGWLSGEVSDDGPGIPENNIDAIFNKGFSTKGENRGVGLFLANQQLRELGGTLAVESEPGVFTQFFVHLPWDSKRKPA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Subcellular localization

Localization
CytoplasmicMembrane

Gene Ontology (GO)

5
  • GO:0016772 Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to another (acceptor).
  • GO:0000155 Catalysis of the phosphorylation of a histidine residue in response to detection of an extracellular signal such as a chemical ligand or change in environment, to initiate a change in cell state or activity. The two-component sensor is a histidine kinase that autophosphorylates a histidine residue in its active site. The phosphate is then transferred to an aspartate residue in a downstream response regulator, to trigger a response.
  • GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
  • GO:0000160 A conserved series of molecular signals found in prokaryotes and eukaryotes; involves autophosphorylation of a histidine kinase and the transfer of the phosphate group to an aspartate that then acts as a phospho-donor to response regulator proteins.
  • GO:0016310 The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

46 records
Show feature table
Start End DB Term Name
270 512 PANTHER PTHR43547 TWO-COMPONENT HISTIDINE KINASE
26 155 Pfam PF17203 Single cache domain 3
26 155 InterPro IPR033463 Single cache domain 3
160 179 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
18 158 Gene3D G3DSA:3.30.450.20 PAS domain
1 4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
316 508 ProSiteProfiles PS50109 Histidine kinase domain profile.
316 508 InterPro IPR005467 Histidine kinase domain
180 513 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
25 159 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
185 294 Gene3D G3DSA:3.30.450.20 PAS domain
309 372 SUPERFAMILY SSF55890 Sporulation response regulatory protein Spo0B
309 372 InterPro IPR016120 Signal transduction histidine kinase, sporulation regulator SpoOB
24 155 SUPERFAMILY SSF103190 Sensory domain-like
24 155 InterPro IPR029151 Periplasmic sensor-like domain superfamily
4 21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
17 24 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
295 355 Gene3D G3DSA:1.10.287.130 -
310 346 Pfam PF14689 Sensor_kinase_SpoOB-type, alpha-helical domain
310 346 InterPro IPR039506 SpoOB, alpha-helical domain
5 16 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
160 179 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
398 505 SUPERFAMILY SSF55874 ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
398 505 InterPro IPR036890 Histidine kinase/HSP90-like ATPase superfamily
203 292 SUPERFAMILY SSF55785 PYP-like sensor domain (PAS domain)
203 292 InterPro IPR035965 PAS domain superfamily
200 250 Pfam PF00989 PAS fold
200 250 InterPro IPR013767 PAS fold
405 505 Pfam PF02518 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
405 505 InterPro IPR003594 Histidine kinase/HSP90-like ATPase
1 24 Phobius SIGNAL_PEPTIDE Signal peptide region
208 293 CDD cd00130 PAS
208 293 InterPro IPR000014 PAS domain
439 453 PRINTS PR00344 Bacterial sensor protein C-terminal signature
439 453 InterPro IPR004358 Signal transduction histidine kinase-related protein, C-terminal
468 486 PRINTS PR00344 Bacterial sensor protein C-terminal signature
468 486 InterPro IPR004358 Signal transduction histidine kinase-related protein, C-terminal
457 467 PRINTS PR00344 Bacterial sensor protein C-terminal signature
457 467 InterPro IPR004358 Signal transduction histidine kinase-related protein, C-terminal
492 505 PRINTS PR00344 Bacterial sensor protein C-terminal signature
492 505 InterPro IPR004358 Signal transduction histidine kinase-related protein, C-terminal
374 511 Gene3D G3DSA:3.30.565.10 -
374 511 InterPro IPR036890 Histidine kinase/HSP90-like ATPase superfamily
400 508 SMART SM00387 HKATPase_4
400 508 InterPro IPR003594 Histidine kinase/HSP90-like ATPase
18 158 FunFam G3DSA:3.30.450.20:FF:000045 Sensor histidine kinase DcuS

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
0.77
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Surrounding area
Pocket 2 P2Rank #2
0.392
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Surrounding area
Pocket 3 P2Rank #3
0.189
Likely same site as FPocket 43 1.2 Å 12 shared residues 92% of smaller site
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Surrounding area
Pocket 4 P2Rank #4
0.006
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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 #43
0.456 Unusual size
Likely same site as P2Rank 3 1.2 Å 12 shared residues 92% of smaller site
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Surrounding area
Pocket 2 FPocket #1
0.237
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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_A0A0H3GPD8
AlphaFold DB full sequence Viewing
ColabFold VK055_0951
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.

54 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 4 records from similar proteins
Structural ligands 4 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
ANP PDB via homolog 506.2 Da · LogP -2.06 · TPSA 281.9 Open detail RCSB PDB
FLC PDB via homolog Detail RCSB PDB
MO7 PDB via homolog Detail RCSB PDB
OMO PDB via homolog Detail RCSB PDB
ZINC12360002 ZINC proposed compound · Tanimoto 0.810 Detail ZINC

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
ANP RCSB PDB Q9WZV7 506.2 Da LogP -2.06 TPSA 281.9 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
FLC RCSB PDB P52687 189.1 Da LogP -5.25 TPSA 140.6 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(CC(=O)[O-])(C(=O)[O-])O
MO7 RCSB PDB P52687 [O-][Mo]123(=O)O[Mo]45(=O)(O16[Mo]7(=O)(O2)(O[M…
OMO RCSB PDB P52687 146.0 Da LogP -1.24 TPSA 57.5 ✓ Ro5 ✓ Clean O[Mo+6](=O)O

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.