Protein target profile

KP13_04217

Thioredoxin reductase

Genome: KpKP13 Gene: AHE45448.1 trxB 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GQX9
Length 331
Pocket druggability 0.892
Direct ligand evidence 0 71 total records
Functional annotation 1 EC 7 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
Hit
Human identity (%)
24.747 Lower values reduce human off-target concern.
Human E-value
6.64e-06
Gut microbiome similarity
12.8% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
84.953 Higher values support similarity to known essential genes.
DEG E-value
0.0 Smaller values mean stronger essential-gene similarity.

Localization

Localization
Unknown

Structure confidence

ColabFold pLDDT
93.0 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt model

The selected pocket score is the FPocket value used for ranking after applying the curated structure priority. It estimates small-molecule pocket quality; it is not experimental binding evidence. The 3D viewer may show a different loaded structure, so visible pockets can differ.

FPocket 0.892
Structure A0A0H3GQX9
Pocket Pocket 2
P2Rank 0.85
Structure A0A0H3GQX9
Pocket Pocket 1
ColabFold model
FPocket 0.939 · Pocket 1
P2Rank 0.865 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 607 / 4744 genomes with a hit
Prevalence 12.8%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MYANYYGDLMGTAKHSKLLILGSGPAGYTAAVYAARANLQPVLITGMEKGGQLTTTTEVENWPGDPNDLTGPLLMERMHEHAAKFETEIIFDHISRVDLQNRPFRLTGDSGEYTCDALIIATGASARYLGLPSEEAFKGRGVSACATCDGFFYRNQKVAVIGGGNTAVEEALYLSNIASEVHLIHRRDSFRAEKILIKRLMDKVASGNIVLHTDRTLEEVTGDQMGVSGLRLRDTKNSDNVESLEVAGLFVAIGHSPNTAIFEGQLELENGYIKVQSGIHGNATQTSIPGVFAAGDVMDHIYRQAITSAGTGCMAALDAERYLDGLADACK

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0016491 Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
  • GO:0019430 Any process, acting at the cellular level, involved in removing superoxide radicals (O2-) from a cell or organism, e.g. by conversion to dioxygen (O2) and hydrogen peroxide (H2O2).
  • GO:0004791 Catalysis of the reaction: thioredoxin-dithiol + NADP+ = thioredoxin-disulfide + H+ + NADPH.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0032991 A stable assembly of two or more macromolecules, i.e. proteins, nucleic acids, carbohydrates or lipids, in which at least one component is a protein and the constituent parts function together.
  • GO:0050660 Binding to FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

28 records
Show feature table
Start End DB Term Name
145 165 ProSitePatterns PS00573 Pyridine nucleotide-disulphide oxidoreductases class-II active site.
145 165 InterPro IPR008255 Pyridine nucleotide-disulphide oxidoreductase, class-II, active site
248 269 PRINTS PR00469 Pyridine nucleotide disulphide reductase class-II signature
71 81 PRINTS PR00469 Pyridine nucleotide disulphide reductase class-II signature
138 150 PRINTS PR00469 Pyridine nucleotide disulphide reductase class-II signature
116 124 PRINTS PR00469 Pyridine nucleotide disulphide reductase class-II signature
153 177 PRINTS PR00469 Pyridine nucleotide disulphide reductase class-II signature
286 304 PRINTS PR00469 Pyridine nucleotide disulphide reductase class-II signature
50 65 PRINTS PR00469 Pyridine nucleotide disulphide reductase class-II signature
208 224 PRINTS PR00469 Pyridine nucleotide disulphide reductase class-II signature
17 39 PRINTS PR00469 Pyridine nucleotide disulphide reductase class-II signature
11 324 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain
11 324 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
157 175 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
18 37 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
115 133 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
276 298 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
246 262 PRINTS PR00368 FAD-dependent pyridine nucleotide reductase signature
14 324 PANTHER PTHR48105 THIOREDOXIN REDUCTASE 1-RELATED-RELATED
127 254 Gene3D G3DSA:3.50.50.60 -
127 254 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
18 323 Gene3D G3DSA:3.50.50.60 -
18 323 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
127 254 FunFam G3DSA:3.50.50.60:FF:000007 Alkyl hydroperoxide reductase, F subunit
17 309 Pfam PF07992 Pyridine nucleotide-disulphide oxidoreductase
17 309 InterPro IPR023753 FAD/NAD(P)-binding domain
17 323 NCBIfam TIGR01292 thioredoxin-disulfide reductase
17 323 InterPro IPR005982 Thioredoxin reductase

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 · FPocket

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

Site 1 FPocket #2
0.892
Likely same site as P2Rank 2 2.4 Å 19 shared residues 79% of smaller site
Unusual size
Show in viewer
Surrounding area
Site 2 FPocket #3
0.359
Likely same site as P2Rank 4 1.4 Å 9 shared residues 90% of smaller site
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Surrounding area
Site 3 FPocket #18
0.357
Likely same site as P2Rank 3 4.9 Å 12 shared residues 80% of smaller site
Show in viewer
Surrounding area

Binding pockets · P2Rank

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

Site 1 P2Rank #1
0.85
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.584
Likely same site as FPocket 2 2.4 Å 19 shared residues 79% of smaller site
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.496
Likely same site as FPocket 18 4.9 Å 12 shared residues 80% of smaller site
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.124
Likely same site as FPocket 3 1.4 Å 9 shared residues 90% of smaller site
Show in viewer
Surrounding area
Site 5 P2Rank #5
0.084
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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_A0A0H3GQX9
AlphaFold DB full sequence Viewing
ColabFold KP13_04217
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.

71 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 21 records from similar proteins
Structural ligands 5 0 loaded crystals
Measured bioactivity 16 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
3AA PDB via homolog 716.4 Da · LogP -2.42 · TPSA 347.7 Open detail RCSB PDB
FDA PDB via homolog Detail RCSB PDB
FLC PDB via homolog Detail RCSB PDB
MLI PDB via homolog Detail RCSB PDB
MLT 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
3AA RCSB PDB P0A9P4 716.4 Da LogP -2.42 TPSA 347.7 3 viol. ✓ Clean c1cc(c[n+](c1)[C@H]2[C@@H]([C@@H]([C@H](O2)CO[P…
FDA RCSB PDB Q8YID2 787.6 Da LogP -1.75 TPSA 363.3 3 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=C(N2)C(=O)NC(=O)N3)C[C@@H]([C…
FLC RCSB PDB A9LN30 189.1 Da LogP -5.25 TPSA 140.6 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(CC(=O)[O-])(C(=O)[O-])O
MLI RCSB PDB A0A229Y1X4 102.0 Da LogP -3.12 TPSA 80.3 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(=O)[O-]
MLT RCSB PDB A0A229Y1X4 134.1 Da LogP -1.09 TPSA 94.8 ✓ Ro5 ✓ Clean C([C@H](C(=O)O)O)C(=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.