KpKP13 Protein target profile

transketolase 2

Accession: KP13_32378

Gene: AHE43322.1 tkt2 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GW02
Length 664
Pocket druggability (P2Rank · AlphaFold DB model) 0.9
Direct ligand evidence 0 74 total records
Functional annotation 1 EC 5 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 (%)
35.915 Lower values reduce human off-target concern.
Human E-value
1.23e-16
Gut microbiome similarity
8.7% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
98.17 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) 0.9
Structure A0A0H3GW02
Pocket Pocket 1
Druggability (FPocket) 0.807
Structure A0A0H3GW02
Pocket Pocket 2
ColabFold model
P2Rank 0.839 · Pocket 1
FPocket 0.391 · Pocket 13
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 411 / 4744 genomes with a hit
Prevalence 8.7%

Sequence

Primary amino-acid sequence viewer.

MSRRELANAIRALSMDAVQKANSGHPGAPMGMADIAEVLWNDFLKHNPQNPDWVDRDRFILSNGHASMLLYSLLHLTGYDLPLSELKQFRQLHSKTPGHPEHGYTPGVETTTGPLGQGLANAVGMAIAERTLVAQFNRPGHEIIDHHTWVFMGDGCLMEGISHEACSLAGTLGLGKLIGFYDHNGISIDGKTEGWFSDDTAERFRAYHWHVIGDIDGHDPQAIKQAITEAQAVKDKPSLIICRTIIGFGSPNKAGSEESHGAALGEKEVALARQQLGWKYPPFEIPKEIYAGWDARPRGEKAEHAWNEKFAAYQQQFPELAAELTRRMNGALPEDFAATARDYVAKLQAEPAKIASRKASQNALNAYGPHLPELLGGSADLAPSNLTIWSGSTSIKEDPAGNYIHYGVREFGMTAVANGIALHGGFIPYTSTFLMFVEYARNAARMAALMKARQIMVYTHDSIGLGEDGPTHQAVEQLASLRLTPNFSTWRPCDQVETAVAWQAAIARQGGPTALILSRQNLAQMPRTPEQVQDIARGGYVLKDAGGKPDLILIATGSEVEITVLAAEKLLAKGVNVRVVSLPSTDVFDAQDEAWRESVLPSDVSARVAVEAGIADYWYKYVGLKGKIVGMTGYGESAPAEQLFPFFGFTVDHIVATAEQVLNG

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:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0004802 Catalysis of the reversible transfer of a 2-carbon ketol group (CH2OH-CO-) from a ketose phosphate donor to an aldose phosphate acceptor.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0046872 Binding to a metal ion.
  • GO:0009052 The branch of the pentose-phosphate shunt which does not involve oxidation reactions. It comprises a series of sugar phosphate interconversions, starting with ribulose 5-P and producing fructose 6-P and glyceraldehyde 3-P.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

32 records
Show feature table
Start End DB Term Name
5 663 NCBIfam TIGR00232 transketolase
5 663 InterPro IPR005478 Transketolase, bacterial-like
466 482 ProSitePatterns PS00802 Transketolase signature 2.
466 482 InterPro IPR020826 Transketolase binding site
353 523 Pfam PF02779 Transketolase, pyrimidine binding domain
353 523 InterPro IPR005475 Transketolase-like, pyrimidine-binding domain
333 525 SUPERFAMILY SSF52518 Thiamin diphosphate-binding fold (THDP-binding)
333 525 InterPro IPR029061 Thiamin diphosphate-binding fold
541 654 Pfam PF02780 Transketolase, C-terminal domain
541 654 InterPro IPR033248 Transketolase, C-terminal domain
532 663 SUPERFAMILY SSF52922 TK C-terminal domain-like
532 663 InterPro IPR009014 Transketolase C-terminal/Pyruvate-ferredoxin oxidoreductase domain II
326 536 Gene3D G3DSA:3.40.50.970 -
354 524 SMART SM00861 Transket_pyr_3
354 524 InterPro IPR005475 Transketolase-like, pyrimidine-binding domain
4 320 SUPERFAMILY SSF52518 Thiamin diphosphate-binding fold (THDP-binding)
4 320 InterPro IPR029061 Thiamin diphosphate-binding fold
326 536 FunFam G3DSA:3.40.50.970:FF:000003 Transketolase
1 325 FunFam G3DSA:3.40.50.970:FF:000004 Transketolase
358 519 CDD cd07033 TPP_PYR_DXS_TK_like
11 31 ProSitePatterns PS00801 Transketolase signature 1.
11 31 InterPro IPR005474 Transketolase, N-terminal
2 325 Gene3D G3DSA:3.40.50.970 -
8 273 CDD cd02012 TPP_TK
8 273 InterPro IPR005474 Transketolase, N-terminal
537 663 Gene3D G3DSA:3.40.50.920 -
537 663 InterPro IPR009014 Transketolase C-terminal/Pyruvate-ferredoxin oxidoreductase domain II
2 662 PANTHER PTHR43522 TRANSKETOLASE
2 662 InterPro IPR033247 Transketolase family
537 663 FunFam G3DSA:3.40.50.920:FF:000003 Transketolase
3 333 Pfam PF00456 Transketolase, thiamine diphosphate binding domain
3 333 InterPro IPR005474 Transketolase, N-terminal

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
0.9
Likely same site as FPocket 1 1.8 Å 19 shared residues 95% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.192
Show in viewer
Surrounding area
Pocket 3 P2Rank #3
0.161
Show in viewer
Surrounding area
Pocket 4 P2Rank #4
0.085
Show in viewer
Surrounding area
Pocket 5 P2Rank #5
0.05
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
0.807 Unusual size
Show in viewer
Surrounding area
Pocket 2 FPocket #1
0.47
Likely same site as P2Rank 1 1.8 Å 19 shared residues 95% of smaller site
Show in viewer
Surrounding area
Residue sets
UniProt: Active site:410-410 Proton donor
UniProt: Binding site:113-115
UniProt: Binding site:154-154
UniProt: Binding site:155-155
UniProt: Binding site:184-184
UniProt: Binding site:186-186
UniProt: Binding site:25-25
UniProt: Binding site:260-260
UniProt: Binding site:357-357
UniProt: Binding site:384-384
UniProt: Binding site:436-436
UniProt: Binding site:460-460
UniProt: Binding site:468-468
UniProt: Binding site:472-472
UniProt: Binding site:519-519
UniProt: Binding site:65-65
UniProt: Site:25-25 Important for catalytic activity
UniProt: Site:260-260 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_A0A0H3GW02
AlphaFold DB full sequence Viewing
ColabFold KP13_32378
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.

74 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 24 records from similar proteins
Structural ligands 24 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
5SP PDB via homolog 230.1 Da · LogP -2.62 · TPSA 144.5 Open detail RCSB PDB
8EF PDB via homolog Detail RCSB PDB
8EL PDB via homolog Detail RCSB PDB
8EO PDB via homolog Detail RCSB PDB
8FL 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
5SP RCSB PDB P34736 230.1 Da LogP -2.62 TPSA 144.5 ✓ Ro5 ✓ Clean C([C@H]([C@@H](C(=O)CO)O)O)OP(=O)(O)O
8EF RCSB PDB P34736 426.3 Da LogP 1.37 TPSA 168.3 ✓ Ro5 ✓ Clean Cc1ncc(c(n1)N)CN2CS[C@H](C2=C)CCOP(=O)(O)OP(=O)…
8EL RCSB PDB P34736 426.3 Da LogP 1.72 TPSA 168.3 ✓ Ro5 ✓ Clean Cc1ncc(c(n1)N)CN2CSC(=C2C)CCOP(=O)(O)OP(=O)(O)O
8EO RCSB PDB P34736 427.3 Da LogP 1.03 TPSA 168.1 ✓ Ro5 ✓ Clean Cc1ncc(c(n1)N)C[N+]2=C([C@@H](SC2)CCOP(=O)(O)OP…
8FL RCSB PDB P34736 442.3 Da LogP 1.04 TPSA 188.6 ✓ Ro5 ✓ Clean Cc1ncc(c(n1)N)CN2[C@@H](SC(=C2C)CCOP(=O)(O)OP(=…
8GF RCSB PDB P34736 109.1 Da LogP 0.37 TPSA 51.8 ✓ Ro5 ✓ Clean Cc1nccc(n1)N
8ML RCSB PDB P34736 686.5 Da LogP -2.34 TPSA 336.2 3 viol. ✓ Clean Cc1ncc(c(n1)N)CN2C(SC(C2=C)CCOP(=O)(O)OP(=O)(O)…
8N9 RCSB PDB P34736 484.4 Da LogP 1.48 TPSA 208.8 2 viol. ✓ Clean Cc1ncc(c(n1)N)CN\2C(=C(S/C2=C(\CO)/O)CCOP(=O)(O…
BTB RCSB PDB A0A6L7H165 209.2 Da LogP -3.01 TPSA 104.4 ✓ Ro5 ✓ Clean C(CO)N(CCO)C(CO)(CO)CO
E4P RCSB PDB P34736 200.1 Da LogP -1.98 TPSA 124.3 ✓ Ro5 ✓ Clean C([C@H]([C@H](C=O)O)O)OP(=O)(O)O
F6R RCSB PDB P34736 260.1 Da LogP -3.26 TPSA 164.8 1 viol. ✓ Clean C([C@H]([C@H]([C@@H](C(=O)CO)O)O)O)OP(=O)(O)O
HSX RCSB PDB P34736 230.1 Da LogP -2.47 TPSA 136.7 ✓ Ro5 ✓ Clean C([C@@H]1[C@H]([C@H]([C@H](O1)O)O)O)OP(=O)(O)O
I22 RCSB PDB P34736 290.2 Da LogP -3.90 TPSA 185.0 1 viol. ✓ Clean C([C@H]([C@H]([C@H]([C@@H](C(=O)CO)O)O)O)O)OP(=…
M6T RCSB PDB P23254 438.3 Da LogP 0.52 TPSA 171.8 ✓ Ro5 ✓ Clean Cc1c(c(nc(n1)C)N)C[n+]2csc(c2C)CCO[P@](=O)(O)O[…
N1T RCSB PDB P23254 423.3 Da LogP 0.81 TPSA 158.9 ✓ Ro5 ✓ Clean Cc1ccc(c(n1)N)C[n+]2csc(c2C)CCO[P@](=O)(O)O[P@@…
N3T RCSB PDB P23254 423.3 Da LogP 0.81 TPSA 158.9 ✓ Ro5 ✓ Clean Cc1cc(c(cn1)C[n+]2csc(c2C)CCO[P@](=O)(O)O[P@@](…
NDQ RCSB PDB P27302 441.3 Da LogP 0.54 TPSA 178.2 ✓ Ro5 ✓ Clean Cc1c(sc[n+]1Cc2cnc(nc2N)OC)CCOP(=O)(O)OP(=O)(O)O
P23 RCSB PDB P34736 220.1 Da LogP 0.62 TPSA 113.3 ✓ Ro5 ✓ Clean CCCO[P@@](=O)(O)OP(=O)(O)O
PG5 RCSB PDB A0A6L7H165 178.2 Da LogP 0.31 TPSA 36.9 ✓ Ro5 ✓ Clean COCCOCCOCCOC
POP RCSB PDB P34736 176.0 Da LogP -2.08 TPSA 129.9 ✓ Ro5 ✓ Clean O[P@@](=O)([O-])O[P@@](=O)(O)[O-]
R5P RCSB PDB Q0P7Y3 230.1 Da LogP -2.62 TPSA 144.5 ✓ Ro5 ✓ Clean C(C(C(C(C=O)O)O)O)OP(=O)(O)O
RP5 RCSB PDB Q0P7Y3 230.1 Da LogP -2.47 TPSA 136.7 ✓ Ro5 ✓ Clean C([C@@H]1[C@H]([C@H]([C@@H](O1)O)O)O)OP(=O)(O)O
T5X RCSB PDB P34736 655.4 Da LogP -2.15 TPSA 316.6 3 viol. ✓ Clean Cc1c(sc([n+]1Cc2cnc(nc2N)C)[C@](CO)([C@H]([C@@H…
T6F RCSB PDB P34736 685.5 Da LogP -2.79 TPSA 336.9 3 viol. ✓ Clean Cc1c(sc([n+]1Cc2cnc(nc2N)C)[C@](CO)([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.