KpATCC43816 Protein target profile

adenosine deaminase

Accession: VK055_0519

Gene: AIK79142.1 add 3D evidence: AlphaFold DB model + ColabFold model Metabolism 2 reactions UniProt A0A0H3GP55
Length 333
Pocket druggability (P2Rank · AlphaFold DB model) 0.811
Metabolic reactions 2
Chokepoint No
Direct ligand evidence 0 162 total records
Functional annotation 0 EC 3 GO
Target summary

Strong target candidate with converging metabolic, structural and chemical evidence.

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 (%)
43.86 Lower values reduce human off-target concern.
Human E-value
5.36e-06
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
97.96 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) 0.811
Structure A0A0H3GP55
Pocket Pocket 1
Druggability (FPocket) 0.869
Structure A0A0H3GP55
Pocket Pocket 2
ColabFold model
P2Rank 0.865 · Pocket 1
FPocket 0.746 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 124 / 4744 genomes with a hit
Prevalence 2.6%

Metabolic context

Reactions catalyzed, pathway membership, and centrality in the genome-scale metabolic network.

Explore metabolic network

Metabolic context: more central than 88.5% of genes in this genome.

Relative network centrality 88.5% more central than 88.5% of genes in this genome
Chokepoint Not a chokepoint
Catalyzed reactions

2 reactions mapped to this gene in the metabolic model. Open the full network to see each one, with substrates/products and the reaction-reaction map.

Imported from KpATCC43816.sbml · 2026-07-09

Sequence

Primary amino-acid sequence viewer.

MIDSSLPLTDIHRHLDGNIRAQTILDLGREFNIALPATTLDTLRPHVQVTSLEPDLVSFLAKLDWGVKVLASLEACRRVAYENVEDAARNGLHYVELRFSPRYMAMTHRLPVDGVVEAVIAGVQEGCRDFQVDARLIGILSRTFGEAACQEELAALLAHREGITALDLAGDELGFPGTLFRNHFNQARDAGWHITVHAGEAAGPESIWQAIRELGAERIGHGVKAVEDPALMDYLAEHRIGIESCLTSNVQTSTVASLAQHPLKQFLEHGVLASLNTDDPAVQGVDIIHEYTVAAPAAGLSREQIRQAQINGLTLAFLGEQEKAALIQRVAKG

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Subcellular localization

Localization
Cytoplasmic

Gene Ontology (GO)

3
  • GO:0019239 Catalysis of the removal of an amino group from a substrate, producing a substituted or nonsubstituted ammonia (NH4+/NH2R).
  • GO:0009168 The chemical reactions and pathways resulting in the formation of purine ribonucleoside monophosphate, a compound consisting of a purine base linked to a ribose sugar esterified with phosphate on the sugar.
  • GO:0004000 Catalysis of the reaction: adenosine + H2O = inosine + NH4+.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

15 records
Show feature table
Start End DB Term Name
6 330 CDD cd01320 ADA
6 330 InterPro IPR006330 Adenosine/adenine deaminase
2 332 Gene3D G3DSA:3.20.20.140 -
5 326 SUPERFAMILY SSF51556 Metallo-dependent hydrolases
5 326 InterPro IPR032466 Metal-dependent hydrolase
7 332 Pfam PF00962 Adenosine deaminase
7 332 InterPro IPR001365 Adenosine deaminase domain
1 331 Hamap MF_00540 Adenosine deaminase [add].
1 331 InterPro IPR028893 Adenosine deaminase
274 280 ProSitePatterns PS00485 Adenosine and AMP deaminase signature.
274 280 InterPro IPR006650 Adenosine/AMP deaminase active site
1 333 FunFam G3DSA:3.20.20.140:FF:000009 Adenosine deaminase
4 331 PANTHER PTHR11409 ADENOSINE DEAMINASE
4 331 InterPro IPR006330 Adenosine/adenine deaminase
6 330 NCBIfam TIGR01430 adenosine deaminase

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

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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
0.811
Likely same site as FPocket 2 0.8 Å 21 shared residues 100% of smaller site
Show in viewer
Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #2
0.869
Likely same site as P2Rank 1 0.8 Å 21 shared residues 100% of smaller site
Show in viewer
Surrounding area
Residue sets
UniProt: Active site:200-200 Proton donor
UniProt: Binding site:12-12
UniProt: Binding site:14-14
UniProt: Binding site:16-16
UniProt: Binding site:170-170
UniProt: Binding site:197-197
UniProt: Binding site:278-278
UniProt: Binding site:279-279
UniProt: Site:221-221 Important for catalytic activity
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_A0A0H3GP55
AlphaFold DB full sequence Viewing
ColabFold VK055_0519
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.

162 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 112 records from similar proteins
Structural ligands 12 0 loaded crystals
Measured bioactivity 100 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
3D1 PDB via homolog 251.2 Da · LogP -0.95 · TPSA 119.3 Open detail RCSB PDB
9DI PDB via homolog Detail RCSB PDB
ADE PDB via homolog Detail RCSB PDB
CXS PDB via homolog Detail RCSB PDB
DCF 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
3D1 RCSB PDB P00813 251.2 Da LogP -0.95 TPSA 119.3 ✓ Ro5 ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3C[C@@H]([C@H](O3)CO)O)N
9DI RCSB PDB P03958 267.2 Da LogP -1.59 TPSA 131.5 ✓ Ro5 ✓ Clean c1c(c2c([nH]1)C(=O)NC=N2)[C@H]3[C@@H]([C@@H]([C…
ADE RCSB PDB A1R3U3 135.1 Da LogP -0.06 TPSA 80.5 ✓ Ro5 ✓ Clean c1[nH]c2c(n1)c(ncn2)N
CXS RCSB PDB Q9KNI7 221.3 Da LogP 1.19 TPSA 66.4 ✓ Ro5 ✓ Clean C1CCC(CC1)NCCCS(=O)(=O)O
DCF RCSB PDB P03958 268.3 Da LogP -1.18 TPSA 112.1 ✓ Ro5 ✓ Clean c1nc2c(n1[C@H]3C[C@@H]([C@H](O3)CO)O)N=CNC[C@H]…
FR2 RCSB PDB P56658 259.3 Da LogP 1.15 TPSA 81.1 ✓ Ro5 ✓ Clean c1ccc(cc1)CC[C@H](CO)n2cc(nc2)C(=O)N
FR3 RCSB PDB P56658 309.4 Da LogP 2.30 TPSA 81.1 ✓ Ro5 ✓ Clean c1ccc2c(c1)cccc2CC[C@H](CO)n3cc(nc3)C(=O)N
FRK RCSB PDB P56658 382.5 Da LogP 5.41 TPSA 82.5 1 viol. ✓ Clean CCCCCC(=O)Nc1nc(c(s1)c2ccc(cc2)O)c3ccc(cc3)O
FRL RCSB PDB P56658 424.9 Da LogP 4.00 TPSA 107.2 ✓ Ro5 ✓ Clean C[C@@H](C(CCc1cccc2c1oc(n2)c3ccc(cc3)Cl)n4cc(nc…
HPR RCSB PDB P03958 270.2 Da LogP -2.19 TPSA 131.2 ✓ Ro5 ✓ Clean c1nc2c(c(n1)O)NCN2[C@H]3[C@@H]([C@@H]([C@H](O3)…
PRH RCSB PDB P03958 271.3 Da LogP -2.83 TPSA 133.6 ✓ Ro5 ✓ Clean c1[nH+]c2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO)O)…
PUR RCSB PDB P03958 253.2 Da LogP -2.14 TPSA 114.8 ✓ Ro5 ✓ Clean c1c2c(ncn1)n(c[nH+]2)[C@H]3[C@@H]([C@@H]([C@H](…

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.

Chemistry

ChEMBL CHEMBL1651377 ChEMBL CHEMBL284483 ChEMBL CHEMBL604966 ChEMBL CHEMBL1651379 ChEMBL CHEMBL363042 ChEMBL CHEMBL190239 ChEMBL CHEMBL5864154 ChEMBL CHEMBL190495 ChEMBL CHEMBL5818178 ChEMBL CHEMBL42063 ChEMBL CHEMBL4202457 ChEMBL CHEMBL5755688 ChEMBL CHEMBL6005828 ChEMBL CHEMBL5813207 ChEMBL CHEMBL6000417 ChEMBL CHEMBL295003 ChEMBL CHEMBL295417 ChEMBL CHEMBL5868228 ChEMBL CHEMBL6059148 ChEMBL CHEMBL6063238 ChEMBL CHEMBL43742 ChEMBL CHEMBL1181766 ChEMBL CHEMBL5805964 ChEMBL CHEMBL5911082 ChEMBL EH9 ChEMBL CHEMBL418074 ChEMBL CHEMBL4210264 ChEMBL CHEMBL5879972 ChEMBL CHEMBL5785869 ChEMBL CHEMBL5884259 ChEMBL CHEMBL50378 ChEMBL CHEMBL5983193 ChEMBL CHEMBL6004227 ChEMBL CHEMBL5780320 ChEMBL CHEMBL5956235 ChEMBL CHEMBL5783482 ChEMBL CHEMBL5972430 ChEMBL CHEMBL4207346 ChEMBL CHEMBL5759921 ChEMBL CHEMBL5997347 ChEMBL CHEMBL5809185 ChEMBL CHEMBL5895135 ChEMBL CHEMBL4204605 ChEMBL CHEMBL4216271 ChEMBL CHEMBL5998906 ChEMBL CHEMBL4206823 ChEMBL CHEMBL4208941 ChEMBL CHEMBL5785714 ChEMBL CHEMBL5788860 ChEMBL CHEMBL5894696 ChEMBL CHEMBL5767359 ChEMBL CHEMBL5941353 ChEMBL CHEMBL5958825 ChEMBL CHEMBL4211702 ChEMBL CHEMBL5863520 ChEMBL CHEMBL4203116 ChEMBL CHEMBL4214254 ChEMBL CHEMBL5787523 ChEMBL CHEMBL6039461 ChEMBL CHEMBL6051107 ChEMBL CHEMBL4204068 ChEMBL CHEMBL5814876 ChEMBL CHEMBL6029118 ChEMBL CHEMBL5795227 ChEMBL CHEMBL5974781 ChEMBL CHEMBL5968574 ChEMBL CHEMBL4209345 ChEMBL CHEMBL5961666 ChEMBL CHEMBL4216791 ChEMBL CHEMBL5955399 ChEMBL CHEMBL4211824 ChEMBL CHEMBL5851835 ChEMBL CHEMBL6013260 ChEMBL CHEMBL5793666 ChEMBL CHEMBL6024815 ChEMBL CHEMBL5764390 ChEMBL CHEMBL5866515 ChEMBL CHEMBL5828556 ChEMBL CHEMBL6020132 ChEMBL CHEMBL5810714 ChEMBL FR6 ChEMBL CHEMBL5915858 ChEMBL CHEMBL81390 ChEMBL CHEMBL127469 ChEMBL CHEMBL5781383 ChEMBL CHEMBL5851174 ChEMBL CHEMBL5851497 ChEMBL CHEMBL6030281 ChEMBL CHEMBL5793140 ChEMBL CHEMBL5878173 ChEMBL CHEMBL5996832 ChEMBL CHEMBL6036466 ChEMBL CHEMBL6043910 ChEMBL CHEMBL5934409 ChEMBL CHEMBL5961183 ChEMBL CHEMBL4218202 ChEMBL CHEMBL5843755 ChEMBL CHEMBL322906 ChEMBL CHEMBL340297 ChEMBL CHEMBL6001262