KpKP13 Protein target profile

Galactokinase

Accession: KP13_02993

Gene: AHE45624.1 galK 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GQD1
Length 383
Pocket druggability (P2Rank · AlphaFold DB model) 0.926
Direct ligand evidence 0 64 total records
Functional annotation 1 EC 9 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
Hit
Human identity (%)
43.799 Lower values reduce human off-target concern.
Human E-value
1.2899999999999998e-91
Gut microbiome similarity
3.0% 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
96.72 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) 0.926
Structure A0A0H3GQD1
Pocket Pocket 1
Druggability (FPocket) 0.395
Structure A0A0H3GQD1
Pocket Pocket 2
ColabFold model
P2Rank 0.931 · Pocket 1
FPocket 0.912 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 143 / 4744 genomes with a hit
Prevalence 3.0%

Sequence

Primary amino-acid sequence viewer.

MMSLKEKTQTLFADAFGYPASHVIQAPGRVNLIGEHTDYNDGFVLPCAIDYQTVISCAPRDDRTVRVIAADYDNQTDEFSLDAPIISHDTQQWSNYVRGVVKHLQQRNSHFGGADLVISGNVPQGAGLSSSASLEVAVGTVFQQLYHLPLDGAQIALNGQEAENQFVGCNCGIMDQLISALGKKDHALLIDCRSLGTKAVSMPKGVAVVIINSNFKRTLVGSEYNTRREQCETGARFFQQPALRDVTLEQFNAVAHELDPVVAKRVRHVLTENARTVEAASALEKGDLKRMGELMAESHASMRDDFEITVPQIDTLVEIVKAAIGDKGGVRMTGGGFGGCVVALIPEELVDTVQQAVANEYEAKTGIKETFYVCKPSQGAGQC

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 9 GO

Subcellular localization

Localization
Cytoplasmic

Enzyme Commission (EC)

1

Gene Ontology (GO)

9
  • GO:0006012 The chemical reactions and pathways involving galactose, the aldohexose galacto-hexose. D-galactose is widely distributed in combined form in plants, animals and microorganisms as a constituent of oligo- and polysaccharides; it also occurs in galactolipids and as its glucoside in lactose and melibiose.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0016773 Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to an alcohol group (acceptor).
  • GO:0016301 Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
  • GO:0046835 The process of introducing a phosphate group into a carbohydrate, any organic compound based on the general formula Cx(H2O)y.
  • GO:0004335 Catalysis of the reaction: D-galactose + ATP = alpha-D-galactose 1-phosphate + ADP + 2 H+.
  • GO:0005524 Binding to ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0000287 Binding to a magnesium (Mg) ion.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

39 records
Show feature table
Start End DB Term Name
3 206 FunFam G3DSA:3.30.230.10:FF:000017 Galactokinase
206 381 SUPERFAMILY SSF55060 GHMP Kinase, C-terminal domain
206 381 InterPro IPR036554 GHMP kinase, C-terminal domain superfamily
26 382 Hamap MF_00246 Galactokinase [galK].
26 382 InterPro IPR022963 Galactokinase, bacterial
122 133 ProSitePatterns PS00627 GHMP kinases putative ATP-binding domain.
122 133 InterPro IPR006203 GHMP kinase, ATP-binding, conserved site
28 39 ProSitePatterns PS00106 Galactokinase signature.
28 39 InterPro IPR019741 Galactokinase, conserved site
2 206 Gene3D G3DSA:3.30.230.10 -
2 206 InterPro IPR014721 Ribosomal protein S5 domain 2-type fold, subgroup
1 383 PIRSF PIRSF000530 Galactokinase
1 383 InterPro IPR006206 Mevalonate/galactokinase
26 50 PRINTS PR00959 Mevalonate kinase family signature
329 346 PRINTS PR00959 Mevalonate kinase family signature
120 142 PRINTS PR00959 Mevalonate kinase family signature
163 182 PRINTS PR00959 Mevalonate kinase family signature
93 104 PRINTS PR00473 Galactokinase signature
93 104 InterPro IPR000705 Galactokinase
113 131 PRINTS PR00473 Galactokinase signature
113 131 InterPro IPR000705 Galactokinase
264 278 PRINTS PR00473 Galactokinase signature
264 278 InterPro IPR000705 Galactokinase
28 46 PRINTS PR00473 Galactokinase signature
28 46 InterPro IPR000705 Galactokinase
280 362 Pfam PF08544 GHMP kinases C terminal
280 362 InterPro IPR013750 GHMP kinase, C-terminal domain
115 182 Pfam PF00288 GHMP kinases N terminal domain
115 182 InterPro IPR006204 GHMP kinase N-terminal domain
207 382 Gene3D G3DSA:3.30.70.890 -
207 382 InterPro IPR036554 GHMP kinase, C-terminal domain superfamily
6 380 PANTHER PTHR10457 MEVALONATE KINASE/GALACTOKINASE
206 379 FunFam G3DSA:3.30.70.890:FF:000001 Galactokinase
11 59 Pfam PF10509 Galactokinase galactose-binding signature
11 59 InterPro IPR019539 Galactokinase, N-terminal domain
6 383 NCBIfam TIGR00131 galactokinase
6 383 InterPro IPR000705 Galactokinase
2 203 SUPERFAMILY SSF54211 Ribosomal protein S5 domain 2-like
2 203 InterPro IPR020568 Ribosomal protein S5 domain 2-type fold

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

Loading 3D structure...

Drag to rotate — click the view, then scroll to zoom.

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
0.926
Show in viewer
Surrounding area
Pocket 2 P2Rank #2
0.394
Likely same site as FPocket 2 0.9 Å 14 shared residues 100% of smaller site
Show in viewer
Surrounding area
Pocket 3 P2Rank #3
0.04
Show in viewer
Surrounding area
Pocket 4 P2Rank #4
0.004
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
0.395
Likely same site as P2Rank 2 0.9 Å 14 shared residues 100% of smaller site
Show in viewer
Surrounding area
Residue sets
UniProt: Active site:175-175 Proton acceptor
UniProt: Binding site:125-131
UniProt: Binding site:131-131
UniProt: Binding site:163-163
UniProt: Binding site:224-224
UniProt: Binding site:35-38
UniProt: Site:29-29 Transition state stabilizer
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_A0A0H3GQD1
AlphaFold DB full sequence Viewing
ColabFold KP13_02993
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.

64 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 14 records from similar proteins
Structural ligands 4 0 loaded crystals
Measured bioactivity 10 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
HFK PDB via homolog 350.4 Da · LogP 3.91 · TPSA 79.5 Open detail RCSB PDB
JHJ PDB via homolog Detail RCSB PDB
MEV PDB via homolog Detail RCSB PDB
PMV PDB via homolog Detail RCSB PDB
CHEMBL1550982 ChEMBL via homolog · pchembl 6.22 (~602.6 nM) Detail ChEMBL

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
HFK RCSB PDB P51570 350.4 Da LogP 3.91 TPSA 79.5 ✓ Ro5 ✓ Clean c1ccc2c(c1)nc(o2)NC3=NC4(CCCCC4)C5=C(N3)CCCC5=O
JHJ RCSB PDB P51570 243.3 Da LogP 2.73 TPSA 63.2 ✓ Ro5 ✓ Clean COc1ccc(cc1)NC(=O)Nc2ccncc2
MEV RCSB PDB Q8PW39 147.2 Da LogP -1.74 TPSA 80.6 ✓ Ro5 ✓ Clean C[C@@](CCO)(CC(=O)[O-])O
PMV RCSB PDB Q8PW39 228.1 Da LogP -0.29 TPSA 124.3 ✓ Ro5 ✓ Clean C[C@@](CCOP(=O)(O)O)(CC(=O)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.

Cross-references

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