Genome KpATCC43816

Protein target profile

putative 2Fe-2S cluster-containing protein

Accession: VK055_1464

Gene: AIK80085.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GV80
Length 374
Pocket druggability (P2Rank) 0.906
Direct ligand evidence 0 58 total records
Functional annotation 1 EC 5 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
No hit
Gut microbiome similarity
0.5% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
96.33 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) 0.906
Structure A0A0H3GV80
Pocket Pocket 1
Druggability (FPocket) 0.979
Structure A0A0H3GV80
Pocket Pocket 1
ColabFold model
P2Rank 0.907 · Pocket 1
FPocket 0.982 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 25 / 4744 genomes with a hit
Prevalence 0.5%

Cross-references

External database identifiers for this protein, its structures, ligands, and metabolic reactions.

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.

MSNLSPDFTLPINFCDNPQDAWTIPARFYTDSQAFEHEKERIFANSWICVAHGSEVARPNDYITREIIGENIVIVRGRDNILRAFYNVCPHRGHQLLSGEGKAKNVITCPYHAWAFKLDGNLAHARNCENVANFDSEKATLVPVRLEEYAGFVFINMNPEAESVETQLPGLQDKVLEACPDVHDLKLAARFTTLTPANWKNIVDNYLECYHCGPAHPGFSDSVQVDRYWHTMHGKWTLQYGFAKPSEQSFKFEEGTDAAFHGFWLWPCTMFNVTPIKGMMTVIYEFPVDEETTLQNYDIYFTNEELTDDQKALIEWYRDVFRPEDLRLVESVQKGLKSRGYRGQGRIMADNSGSGISEHGIAHFHNLVAQVFQP

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Subcellular localization

Localization
Cytoplasmic

Enzyme Commission (EC)

1

Gene Ontology (GO)

5
  • GO:0044237 OBSOLETE. The chemical reactions and pathways by which individual cells transform chemical substances.
  • GO:0051537 Binding to a 2 iron, 2 sulfur (2Fe-2S) cluster; this cluster consists of two iron atoms, with two inorganic sulfur atoms found between the irons and acting as bridging ligands.
  • GO:0005506 Binding to an iron (Fe) ion.
  • GO:0009437 The chemical reactions and pathways involving carnitine (hydroxy-trimethyl aminobutyric acid), a compound that participates in the transfer of acyl groups across the inner mitochondrial membrane.
  • GO:0016709 Catalysis of an oxidation-reduction (redox) reaction in which hydrogen or electrons are transferred from NADH or NADPH and one other donor, and one atom of oxygen is incorporated into one donor.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

31 records
Show feature table
Start End DB Term Name
248 373 Gene3D G3DSA:3.90.380.10 -
166 247 Gene3D G3DSA:3.90.380.10 -
15 160 SUPERFAMILY SSF50022 ISP domain
15 160 InterPro IPR036922 Rieske [2Fe-2S] iron-sulphur domain superfamily
46 134 Pfam PF00355 Rieske [2Fe-2S] domain
46 134 InterPro IPR017941 Rieske [2Fe-2S] iron-sulphur domain
188 371 CDD cd08886 RHO_alpha_C_2
44 165 Gene3D G3DSA:2.102.10.10 -
44 165 InterPro IPR036922 Rieske [2Fe-2S] iron-sulphur domain superfamily
61 76 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
61 76 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
103 123 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
103 123 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
31 56 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
31 56 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
144 170 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
144 170 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
82 102 PRINTS PR00090 Ring hydroxylating dioxygenase alpha-subunit signature
82 102 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
47 163 CDD cd03469 Rieske_RO_Alpha_N
89 112 ProSitePatterns PS00570 Bacterial ring hydroxylating dioxygenases alpha-subunit signature.
89 112 InterPro IPR015881 Aromatic-ring-hydroxylating dioxygenase, 2Fe-2S-binding site
47 155 ProSiteProfiles PS51296 Rieske [2Fe-2S] iron-sulfur domain profile.
47 155 InterPro IPR017941 Rieske [2Fe-2S] iron-sulphur domain
1 373 Hamap MF_02097 Carnitine monooxygenase oxygenase subunit.
1 373 InterPro IPR039004 Carnitine monooxygenase oxygenase subunit
14 372 PANTHER PTHR43756 CHOLINE MONOOXYGENASE, CHLOROPLASTIC
14 372 InterPro IPR001663 Aromatic-ring-hydroxylating dioxygenase, alpha subunit
160 371 SUPERFAMILY SSF55961 Bet v1-like
184 371 Pfam PF00848 Ring hydroxylating alpha subunit (catalytic domain)
184 371 InterPro IPR015879 Aromatic-ring-hydroxylating dioxygenase, alpha subunit, C-terminal 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

Probability: high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Pocket 1 P2Rank #1
0.906
Likely same site as FPocket 1 1.3 Å 22 shared residues 100% of smaller site
Show in viewer
Surrounding area
Pocket 2 P2Rank #2
0.472
Show in viewer
Surrounding area
Pocket 3 P2Rank #3
0.029
Show in viewer
Surrounding area
Pocket 4 P2Rank #4
0.012
Show in viewer
Surrounding area
Pocket 5 P2Rank #5
0.012
Show in viewer
Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #1
0.979
Likely same site as P2Rank 1 1.3 Å 22 shared residues 100% of smaller site
Show in viewer
Surrounding area
Residue sets
UniProt: Binding site:109-109
UniProt: Binding site:112-112
UniProt: Binding site:211-211
UniProt: Binding site:216-216
UniProt: Binding site:325-325
UniProt: Binding site:89-89
UniProt: Binding site:91-91
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_A0A0H3GV80
AlphaFold DB full sequence Viewing
ColabFold VK055_1464
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.

58 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 8 records from similar proteins
Structural ligands 8 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
152 PDB via homolog 162.2 Da · LogP -0.47 · TPSA 57.5 Open detail RCSB PDB
3BY PDB via homolog Detail RCSB PDB
AZI PDB via homolog Detail RCSB PDB
BNL PDB via homolog Detail RCSB PDB
FES 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
152 RCSB PDB D0C9N6 162.2 Da LogP -0.47 TPSA 57.5 ✓ Ro5 ✓ Clean C[N+](C)(C)C[C@@H](CC(=O)O)O
3BY RCSB PDB Q92ZP9 129.2 Da LogP 0.17 TPSA 40.5 ✓ Ro5 ✓ Clean CN1CCC[C@H]1C(=O)O
AZI RCSB PDB Q92ZP9 42.0 Da LogP 0.87 TPSA 58.7 ✓ Ro5 Alert [N-]=[N+]=[N-]
BNL RCSB PDB A2TC87 154.2 Da LogP 3.35 TPSA 0.0 ✓ Ro5 ✓ Clean c1ccc(cc1)c2ccccc2
FES RCSB PDB A2TC87 175.8 Da LogP 1.29 TPSA 0.0 ✓ Ro5 ✓ Clean S1[Fe]S[Fe]1
MBN RCSB PDB A5W4F2 92.1 Da LogP 2.00 TPSA 0.0 ✓ Ro5 ✓ Clean Cc1ccccc1
OXY RCSB PDB A2TC87 32.0 Da LogP 0.07 TPSA 34.1 ✓ Ro5 ✓ Clean O=O
PE3 RCSB PDB A5W4F2 634.8 Da LogP -0.81 TPSA 160.5 2 viol. ✓ Clean C(COCCOCCOCCOCCOCCOCCOCCOCCOCCOCCOCCOCCOCCO)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.