Protein target profile

KP13_00143

Alpha-xylosidase

Genome: KpKP13 Gene: AHE42063.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GXH3
Length 772
Pocket druggability 0.212
Direct ligand evidence 0 62 total records
Functional annotation 1 EC 5 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 (%)
29.535 Lower values reduce human off-target concern.
Human E-value
4.82e-41
Gut microbiome similarity
5.9% 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.

Localization

Localization
Unknown

Structure confidence

ColabFold pLDDT
97.96 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 0.212
Structure A0A0H3GXH3
Pocket Pocket 19
P2Rank 0.634
Structure A0A0H3GXH3
Pocket Pocket 1
ColabFold model
FPocket 0.179 · Pocket 21
P2Rank 0.586 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 280 / 4744 genomes with a hit
Prevalence 5.9%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MKISDGNWLIQPGLNLIQPVQVYEVEQQGNEMVVYAAPRDVRERAWQLDTPLFTLRFFSPQEGIIGVRMEHFQGALDNGPHYPLNVQKDVHVEIENTAGFAELKSGSLSVRVTKGEFWALDFLRDGLRITGSQLKNNGYVQDSKTQRNYMFERLDLGVGETVYGLGERFTALVRNGQTVETWNEDGGTSTEQSYKNIPFYLTNRGYGVLVNHPQRVSFEVGSEKVSKVQFSVEGEYLEYFVIDGPTPKAVLNRYTQFTGRPALPPAWSFGLWLTTSFTTNYDEATVNSFIDGMAERHLPLHVFHFDCFWMKAFQWCDFEWDPQTFPDPEGMIKRLKAKGLKVCVWINPYIGQRSPVFKELKEKGYLLKRPDGSLWQWDKWQPGLAIYDFTNPEACQWYADKLKGLVAMGVDCFKTDFGERIPTDVQWFDGSDPQKMHNHYAFIYNELVWKVLKETVGEQEAVLFARSASVGAQQFPVHWGGDCYANYESMAESLRGGLSIGMSGFGFWSHDIGGFENTAPAHVYKRWCAFGLLSSHSRLHGSKSYRVPWAYDDESCDVVRHFTQLKCRMMPYLYRQAALANECGTPMLRAMLLEFPDDPACDYLDRQYMLGDSVLVAPVFSEAGEVQFYLPEGRWTHLWHNDELPGSRWHKQHHDALSLPVYVRDNSLLALGNNDQKPDYAWHEGTAFQLFHLEDGREARCDVPAADGSTIFTLKARRQGNAIAVSGEGEARGWTLCLRNIPQVAGVQGGTQTGSEWGVVVSAEGNTLTITL

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

5
  • GO:0030246 Binding to a carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
  • GO:0005975 The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y.
  • GO:0004553 Catalysis of the hydrolysis of any O-glycosyl bond.
  • 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:0061634 Catalysis of the hydrolysis of terminal, non-reducing alpha-D-xylose residues with release of alpha-D-xylose.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

20 records
Show feature table
Start End DB Term Name
263 603 SUPERFAMILY SSF51445 (Trans)glycosidases
263 603 InterPro IPR017853 Glycoside hydrolase superfamily
259 569 CDD cd06593 GH31_xylosidase_YicI
666 772 SUPERFAMILY SSF117125 Putative glucosidase YicI, C-terminal domain
617 664 Gene3D G3DSA:2.60.40.1180 -
617 664 InterPro IPR013780 Glycosyl hydrolase, all-beta
240 668 Pfam PF01055 Glycosyl hydrolases family 31
240 668 InterPro IPR000322 Glycoside hydrolase family 31
1 247 SUPERFAMILY SSF74650 Galactose mutarotase-like
1 247 InterPro IPR011013 Galactose mutarotase-like domain superfamily
28 664 PANTHER PTHR43053 GLYCOSIDASE FAMILY 31
665 772 Gene3D G3DSA:2.60.40.1180 -
665 772 InterPro IPR013780 Glycosyl hydrolase, all-beta
246 616 FunFam G3DSA:3.20.20.80:FF:000053 Alpha-xylosidase YicI
1 245 Gene3D G3DSA:2.60.40.1760 glycosyl hydrolase (family 31)
586 665 SUPERFAMILY SSF51011 Glycosyl hydrolase domain
150 259 CDD cd14752 GH31_N
159 218 Pfam PF13802 Galactose mutarotase-like
159 218 InterPro IPR025887 Glycoside hydrolase family 31, N-terminal domain
246 616 Gene3D G3DSA:3.20.20.80 Glycosidases

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 #19
0.212
Show in viewer
Surrounding area

Binding pockets · P2Rank

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

Site 1 P2Rank #1
0.634
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Surrounding area
Site 2 P2Rank #2
0.275
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.193
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Surrounding area
Site 4 P2Rank #4
0.082
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Surrounding area
Site 5 P2Rank #5
0.073
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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_A0A0H3GXH3
AlphaFold DB full sequence Viewing
ColabFold KP13_00143
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.

62 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 12 records from similar proteins
Structural ligands 10 0 loaded crystals
Measured bioactivity 2 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
5GF PDB via homolog 198.1 Da · LogP -2.92 · TPSA 110.4 Open detail RCSB PDB
66U PDB via homolog Detail RCSB PDB
66V PDB via homolog Detail RCSB PDB
93Z PDB via homolog Detail RCSB PDB
948 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
5GF RCSB PDB B3PEE6 198.1 Da LogP -2.92 TPSA 110.4 ✓ Ro5 ✓ Clean C([C@@]1([C@H]([C@@H]([C@H]([C@@H](O1)O)O)O)O)F…
66U RCSB PDB B3PEE6 193.2 Da LogP -3.62 TPSA 127.2 1 viol. ✓ Clean C([C@H]1[C@@H]([C@H]([C@@H]([C@H]([C@@H]1O)O)O)…
66V RCSB PDB B3PEE6 347.4 Da LogP -1.10 TPSA 163.5 1 viol. Alert C(CCCCN=[N+]=N)CCCN[C@H]1[C@@H]([C@H]([C@@H]([C…
93Z RCSB PDB B3PEE6 274.2 Da LogP -3.76 TPSA 164.8 1 viol. ✓ Clean C([C@@H]1[C@H]([C@@H]([C@H](C([C@H]1OS(=O)(=O)O…
948 RCSB PDB B3PEE6 175.2 Da LogP -2.97 TPSA 102.9 ✓ Ro5 ✓ Clean C([C@H]1[C@@H]2[C@@H](N2)[C@@H]([C@H]([C@@H]1O)…
94B RCSB PDB B3PEE6 175.2 Da LogP -2.97 TPSA 102.9 ✓ Ro5 ✓ Clean C([C@H]1[C@H]2[C@H](N2)[C@@H]([C@H]([C@@H]1O)O)…
94E RCSB PDB B3PEE6 256.2 Da LogP -3.28 TPSA 133.5 ✓ Ro5 ✓ Clean C([C@@H]1[C@H]([C@@H]([C@H]([C@@H]2[C@H]1OS(=O)…
9VH RCSB PDB C4ZGB7 211.2 Da LogP -2.18 TPSA 106.9 ✓ Ro5 ✓ Clean C1[C@@H]([C@H]([C@@H](CN1)O)O)CS(=O)(=O)O
OXL RCSB PDB B3PEE6 88.0 Da LogP -3.51 TPSA 80.3 ✓ Ro5 ✓ Clean C(=O)(C(=O)[O-])[O-]
XTG RCSB PDB P31434 449.4 Da LogP -2.05 TPSA 192.2 2 viol. ✓ Clean c1cc(ccc1[N+](=O)[O-])O[C@H]2[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.