KpATCC43816 Protein target profile

ABC transporter, substrate-binding, aliphatic sulfonates family protein

Accession: VK055_4363

Gene: AIK82906.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GXJ3
Length 647
Pocket druggability (P2Rank · AlphaFold DB model) 0.829
Direct ligand evidence 0 56 total records
Functional annotation 0 EC 8 GO
Target summary

Target candidate with partial support; inspect missing evidence before prioritizing.

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
0.4% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
85.49 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) 0.829
Structure A0A0H3GXJ3
Pocket Pocket 1
Druggability (FPocket) 0.134
Structure A0A0H3GXJ3
Pocket Pocket 39
ColabFold model
P2Rank 0.827 · Pocket 1
FPocket 0.436 · Pocket 53
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 21 / 4744 genomes with a hit
Prevalence 0.4%

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.

MLNPESPSTAPALIDPASKAFQSLLDKLAPTEATVLIVGETGTGKEVVARYLHHHSARRQQPFLAVNCGALTESLAEAELFGHEKGAFTGAQQGQPGWFEAAEGGTLLLDEIGELSLPLQVKLLRVLQEREITRVGSRKAIKVNVRVIAATHVDLAQAIRERRFREDLYYRLNIAVVPLPPLRQRRQDIPLLAHHFLSLYARRLGRPTLRLAPESLARLMDYSWPGNIRELENTLHNAVLLSKEEEISPAQLRLATLNDAPGPASDHELDDFIRHQLALPGEPLWQRVTSALIRHAMAHCDDNQSQAAALLGISRHTLRTQLANLGLIKSRRRPPAPPRAFANAAGADRELRIGYQRFGSLGILKARQSLETAFASLGVNVLWSEFPAGPQLLHALACNEIDFGTTGEAPPVFAQASNSELMYVAWEPPAPRSVAMVVPQESDIRQLSDLRGKRIALNKGSNVHWLLLQILEDAGLGLNDVRVVYTPPKYPLTASDYLAVDAWMMWDPLLSDAEHTGELRVVASGEGRVNNHQFYLSRRDYLAQHGDIMRRLLTELTHTGQFIDSHRGEAARLLSAELGIDARSLSMALARRSHRPRPMDLSVIRAQQTIADRFYALGLIAKPVPVREAVWYGEPAPDVIRPLMAVS

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

8 GO

Subcellular localization

Localization
Cytoplasmic

Gene Ontology (GO)

8
  • GO:0043565 Binding to DNA of a specific nucleotide composition, e.g. GC-rich DNA binding, or with a specific sequence motif or type of DNA e.g. promotor binding or rDNA binding.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0008134 Binding to a transcription factor, a protein required to initiate or regulate transcription.
  • GO:0042626 Primary active transporter of a solute across a membrane, via the reaction: ATP + H2O = ADP + phosphate, to directly drive the transport of a substance across a membrane. The transport protein may be transiently phosphorylated (P-type transporters), or not (ABC-type transporters and other families of transporters). Primary active transport occurs up the solute's concentration gradient and is driven by a primary energy source.
  • GO:0006355 Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
  • 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:0030313 An envelope that surrounds a bacterial cell and includes the cytoplasmic membrane and everything external, encompassing the periplasmic space, cell wall, and outer membrane if present.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

39 records
Show feature table
Start End DB Term Name
15 328 PANTHER PTHR32071 TRANSCRIPTIONAL REGULATORY PROTEIN
224 233 ProSitePatterns PS00688 Sigma-54 interaction domain C-terminal part signature.
224 233 InterPro IPR025944 Sigma-54 interaction domain, conserved site
35 48 ProSitePatterns PS00675 Sigma-54 interaction domain ATP-binding region A signature.
35 48 InterPro IPR025662 Sigma-54 interaction domain, ATP-binding site 1
351 631 NCBIfam TIGR01728 aliphatic sulfonate ABC transporter substrate-binding protein
351 631 InterPro IPR010067 Aliphatic sulfonates-binding protein
31 175 SMART SM00382 AAA_5
31 175 InterPro IPR003593 AAA+ ATPase domain
97 112 ProSitePatterns PS00676 Sigma-54 interaction domain ATP-binding region B signature.
97 112 InterPro IPR025943 Sigma-54 interaction domain, ATP-binding site 2
431 530 Gene3D G3DSA:3.40.190.10 -
390 554 Pfam PF09084 NMT1/THI5 like
390 554 InterPro IPR015168 SsuA/THI5-like
15 240 ProSiteProfiles PS50045 Sigma-54 interaction domain profile.
15 240 InterPro IPR002078 RNA polymerase sigma factor 54 interaction domain
349 583 SUPERFAMILY SSF53850 Periplasmic binding protein-like II
183 258 Gene3D G3DSA:1.10.8.60 -
353 625 Gene3D G3DSA:3.40.190.10 -
10 182 Gene3D G3DSA:3.40.50.300 -
10 182 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase
18 175 Pfam PF00158 Sigma-54 interaction domain
18 175 InterPro IPR002078 RNA polymerase sigma factor 54 interaction domain
350 624 CDD cd13557 PBP2_SsuA
30 178 CDD cd00009 AAA
224 327 SUPERFAMILY SSF46689 Homeodomain-like
224 327 InterPro IPR009057 Homeobox-like domain superfamily
279 327 Gene3D G3DSA:1.10.10.60 -
12 181 FunFam G3DSA:3.40.50.300:FF:000006 DNA-binding transcriptional regulator NtrC
291 319 Pfam PF02954 Bacterial regulatory protein, Fis family
291 319 InterPro IPR002197 DNA binding HTH domain, Fis-type
350 581 SMART SM00062 AABind_6
350 581 InterPro IPR001638 Solute-binding protein family 3/N-terminal domain of MltF
308 328 PRINTS PR01590 FIS bacterial regulatory protein HTH signature
308 328 InterPro IPR002197 DNA binding HTH domain, Fis-type
291 308 PRINTS PR01590 FIS bacterial regulatory protein HTH signature
291 308 InterPro IPR002197 DNA binding HTH domain, Fis-type
15 253 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases
15 253 InterPro IPR027417 P-loop containing nucleoside triphosphate hydrolase

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
0.829
Show in viewer
Surrounding area
Pocket 2 P2Rank #2
0.688
Show in viewer
Surrounding area
Pocket 3 P2Rank #3
0.234
Show in viewer
Surrounding area
Pocket 4 P2Rank #4
0.045
Show in viewer
Surrounding area
Pocket 5 P2Rank #5
0.037
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_A0A0H3GXJ3
AlphaFold DB full sequence Viewing
ColabFold VK055_4363
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
08T PDB via homolog Open detail RCSB PDB
5QT PDB via homolog Detail RCSB PDB
AGS PDB via homolog Detail RCSB PDB
ANP PDB via homolog Detail RCSB PDB
AZU 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
08T RCSB PDB O67198 [Be](OP(=O)(O)OP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@…
5QT RCSB PDB Q1ZS18 272.3 Da LogP 0.83 TPSA 99.9 ✓ Ro5 ✓ Clean CC(C)(C)COC(=O)CNC1=NNC(=O)NC1=S
AGS RCSB PDB G3XCV0 523.2 Da LogP -1.51 TPSA 262.1 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
ANP RCSB PDB A0A0H3AHP1 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)…
AZU RCSB PDB Q1ZS18 273.3 Da LogP 0.14 TPSA 104.9 ✓ Ro5 ✓ Clean CC(C)(C)COC(=O)CSC1=NNC(=O)NC1=O
C2E RCSB PDB G3XCV0 690.4 Da LogP -3.05 TPSA 349.6 3 viol. ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@H]4[C@H](O3)CO[P@@](=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.