KpATCC43816 Protein target profile

aerobic respiration control sensor protein arcB

Accession: VK055_3858

Gene: AIK82408.1 arcB 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GZ10
Length 779
Pocket druggability (P2Rank · AlphaFold DB model) 0.932
Direct ligand evidence 0 55 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
No hit
Gut microbiome similarity
2.6% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
82.15 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) 0.932
Structure A0A0H3GZ10
Pocket Pocket 1
Druggability (FPocket) 0.869
Structure A0A0H3GZ10
Pocket Pocket 21
ColabFold model
P2Rank 0.954 · Pocket 1
FPocket 0.835 · Pocket 13
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.

MKQIRMLAQYYVDLMMKLGLVRFSMLLALALVVLAIVVQMAVTMVLHGQVESIDVIRSIFFGLLITPWAVYFLSVVVEQLEESRQRLSRLVDKLEEMRERDLKLNVQLKDNIAQLNQEIGEREKAEAERETTLEQLKIEMKEREETQIQLEQQSSFLRSFLDASPDLVFYRNEDKEFSGCNRAMELLTGKSEKQLIHLKPQDVYSEEAAEKVLETDEKVFRHNVSLTYEQWLDYPDGRKACFEIRKVPYYDRVGKRRGLMGFGRDITERKRYQDALERASRDKTTFISTISHELRTPLNGIVGLSRILLDTELTSEQEKYLKTIHVSAVTLGNIFNDIIDMDKMERRKVQLDNQPVDFTSFLADLENLSGLQAQQKGLRFVLEPSLPLPHKVITDGTRLRQILWNLISNAVKFTPQGGGVNVRVRYDEGDILHFEVEDSGIGIPEAEQDKIFAMYYQVKDSHGGKPATGTGIGLAVSRRLARNMGGDISVTSQPGKGATFTLTVHAPAIAEEVEDTLAEDDMPLPALNVLLVEDIELNVIVARSVLEKLGNSVDVAMTGKAALEMFEPGEYDLVLLDIQLPDMTGLDISRELKQRFAADELPPLVALTANVLKNKKEYLDAGMDDVLSKPLSVPALTAMIKKFWDAPDEEAQEAPAADLHKAEAVLDTDMLEQYIELVGPKLINDGLAVFEKMMPGYMSVLESNLTARDQKGIVEEGHKIKGAAGSIGLRHIQQLGQQIQTPDLPAWSDNVAEWVEEMKSEWQNDVAVLKAWVAKASKK

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:0016772 Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to another (acceptor).
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • 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:0007165 The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
  • 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:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
  • GO:0004673 Catalysis of the reaction: ATP + protein L-histidine = ADP + protein phospho-L-histidine.
  • 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.
  • 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:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0009927 Serves as a phospho-His intermediate enabling the transfer of phospho group between a hybrid kinase and a response regulator.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

85 records
Show feature table
Start End DB Term Name
394 508 SMART SM00387 HKATPase_4
394 508 InterPro IPR003594 Histidine kinase/HSP90-like ATPase
1 89 FunFam G3DSA:1.10.287.970:FF:000001 Aerobic respiration control sensor protein
663 774 SUPERFAMILY SSF47226 Histidine-containing phosphotransfer domain, HPT domain
663 774 InterPro IPR036641 HPT domain superfamily
142 267 SUPERFAMILY SSF55785 PYP-like sensor domain (PAS domain)
142 267 InterPro IPR035965 PAS domain superfamily
77 153 Coils Coil Coil
679 772 ProSiteProfiles PS50894 Histidine-containing phosphotransfer (HPt) domain profile.
679 772 InterPro IPR008207 Signal transduction histidine kinase, phosphotransfer (Hpt) domain
510 647 Gene3D G3DSA:3.40.50.2300 -
282 347 SMART SM00388 HisKA_10
282 347 InterPro IPR003661 Signal transduction histidine kinase, dimerisation/phosphoacceptor domain
289 508 ProSiteProfiles PS50109 Histidine kinase domain profile.
289 508 InterPro IPR005467 Histidine kinase domain
348 509 Gene3D G3DSA:3.30.565.10 -
348 509 InterPro IPR036890 Histidine kinase/HSP90-like ATPase superfamily
153 223 ProSiteProfiles PS50112 PAS repeat profile.
153 223 InterPro IPR000014 PAS domain
55 77 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
155 221 SMART SM00091 pas_2
155 221 InterPro IPR000014 PAS domain
527 640 SMART SM00448 REC_2
527 640 InterPro IPR001789 Signal transduction response regulator, receiver domain
348 509 FunFam G3DSA:3.30.565.10:FF:000025 Aerobic respiration control sensor protein
20 42 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
676 773 SMART SM00073 hpt_2
676 773 InterPro IPR008207 Signal transduction histidine kinase, phosphotransfer (Hpt) domain
395 505 Pfam PF02518 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
395 505 InterPro IPR003594 Histidine kinase/HSP90-like ATPase
529 640 Pfam PF00072 Response regulator receiver domain
529 640 InterPro IPR001789 Signal transduction response regulator, receiver domain
280 341 CDD cd00082 HisKA
280 341 InterPro IPR003661 Signal transduction histidine kinase, dimerisation/phosphoacceptor domain
140 278 Gene3D G3DSA:3.30.450.20 PAS domain
527 645 SUPERFAMILY SSF52172 CheY-like
527 645 InterPro IPR011006 CheY-like superfamily
128 645 PANTHER PTHR43047 TWO-COMPONENT HISTIDINE PROTEIN KINASE
279 346 Gene3D G3DSA:1.10.287.130 -
164 266 CDD cd00130 PAS
164 266 InterPro IPR000014 PAS domain
283 346 Pfam PF00512 His Kinase A (phospho-acceptor) domain
283 346 InterPro IPR003661 Signal transduction histidine kinase, dimerisation/phosphoacceptor domain
336 504 SUPERFAMILY SSF55874 ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
336 504 InterPro IPR036890 Histidine kinase/HSP90-like ATPase superfamily
226 278 ProSiteProfiles PS50113 PAC domain profile.
226 278 InterPro IPR000700 PAS-associated, C-terminal
687 761 Pfam PF01627 Hpt domain
687 761 InterPro IPR008207 Signal transduction histidine kinase, phosphotransfer (Hpt) domain
267 345 FunFam G3DSA:1.10.287.130:FF:000016 Aerobic respiration control sensor protein
78 779 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
492 505 PRINTS PR00344 Bacterial sensor protein C-terminal signature
492 505 InterPro IPR004358 Signal transduction histidine kinase-related protein, C-terminal
450 460 PRINTS PR00344 Bacterial sensor protein C-terminal signature
450 460 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
432 446 PRINTS PR00344 Bacterial sensor protein C-terminal signature
432 446 InterPro IPR004358 Signal transduction histidine kinase-related protein, C-terminal
15 89 Pfam PF18415 Histidine kinase receptor ArcB trans-membrane domain
15 89 InterPro IPR040642 Histidine kinase receptor ArcB, transmembrane domain
1 779 PIRSF PIRSF003182 HK_hybr_ArcB
1 779 InterPro IPR014409 Signal transduction histidine kinase, hybrid-type, aerobic respiration control ArcB
151 266 FunFam G3DSA:3.30.450.20:FF:000032 Aerobic respiration control sensor protein
269 347 SUPERFAMILY SSF47384 Homodimeric domain of signal transducing histidine kinase
269 347 InterPro IPR036097 Signal transduction histidine kinase, dimerisation/phosphoacceptor domain superfamily
1 89 Gene3D G3DSA:1.10.287.970 His Kinase A (phosphoacceptor) domain
1 89 InterPro IPR027460 Aerobic respiration control sensor protein ArcB, transmembrane domain superfamily
47 57 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
152 276 NCBIfam TIGR00229 PAS domain S-box protein
152 276 InterPro IPR000014 PAS domain
58 77 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 19 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
510 651 FunFam G3DSA:3.40.50.2300:FF:000107 Aerobic respiration control sensor protein
156 266 Pfam PF00989 PAS fold
156 266 InterPro IPR013767 PAS fold
399 505 CDD cd16922 HATPase_EvgS-ArcB-TorS-like
656 779 Gene3D G3DSA:1.20.120.160 HPT domain
656 779 InterPro IPR036641 HPT domain superfamily
20 46 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
683 763 CDD cd00088 HPT
683 763 InterPro IPR008207 Signal transduction histidine kinase, phosphotransfer (Hpt) domain
529 640 CDD cd17546 REC_hyHK_CKI1_RcsC-like
528 644 ProSiteProfiles PS50110 Response regulatory domain profile.
528 644 InterPro IPR001789 Signal transduction response regulator, receiver domain

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
0.932
Likely same site as FPocket 21 1.9 Å 25 shared residues 96% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.011
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Surrounding area
Pocket 3 P2Rank #3
0.004
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Surrounding area
Pocket 4 P2Rank #4
0.001
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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 #21
0.869 Unusual size
Likely same site as P2Rank 1 1.9 Å 25 shared residues 96% 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_A0A0H3GZ10
AlphaFold DB full sequence Viewing
ColabFold VK055_3858
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.

55 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 5 records from similar proteins
Structural ligands 5 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
BEF PDB via homolog Detail RCSB PDB
BTB PDB via homolog Detail RCSB PDB
MBN PDB via homolog Detail RCSB PDB
XBZ 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
ANP RCSB PDB Q9ABT2 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)…
BEF RCSB PDB O22267 66.0 Da LogP 0.88 TPSA 0.0 ✓ Ro5 ✓ Clean [Be-](F)(F)F
BTB RCSB PDB P0AEC6 209.2 Da LogP -3.01 TPSA 104.4 ✓ Ro5 ✓ Clean C(CO)N(CCO)C(CO)(CO)CO
MBN RCSB PDB A5W4E3 92.1 Da LogP 2.00 TPSA 0.0 ✓ Ro5 ✓ Clean Cc1ccccc1
XBZ RCSB PDB A5W4E3 120.2 Da LogP 2.61 TPSA 0.0 ✓ Ro5 ✓ Clean Cc1ccc(c(c1)C)C

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.