Protein target profile

KP13_00029

Glucosamine--fructose-6-phosphate aminotransferase isomerizing

Genome: KpKP13 Gene: glmS AHE47138.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3H4X5
Length 609
Pocket druggability 0.989
Direct ligand evidence 0 58 total records
Functional annotation 1 EC 10 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 (%)
40.93 Lower values reduce human off-target concern.
Human E-value
4.81e-94
Gut microbiome similarity
5.8% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Localization

Localization
Cytoplasmic

Structure confidence

ColabFold pLDDT
94.29 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 0.989
Structure A0A0H3H4X5
Pocket Pocket 1
P2Rank 0.712
Structure A0A0H3H4X5
Pocket Pocket 1
ColabFold model
FPocket 0.962 · Pocket 1
P2Rank 0.759 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 277 / 4744 genomes with a hit
Prevalence 5.8%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MCGIVGAVAQRDIAEILLEGLRRLEYRGYDSAGLAVVDSEGHMTRVRRLGKVQMLAQAVEEQPLHGGTGIAHTRWATHGEPSESNAHPHVSEHIVVVHNGIIENHEPLRALLQSRGYVFVTETDTEVIAHLVHWELEQGGTLREAVLRAIPQLRGAYGTVIMDTRDPGTLLAARSGSPLVIGLGMGENFIASDQLALLPVTRRFIFLEEGDIAEVTRRSVVIFDKSGAEVKRQEIESNLQYDAGDKGIYRHYMQKEIFEQPNAIKNTLTGRISHGEVDLSELGPNANEMLAQVEHIQIVACGTSYNSGMVSRYWFEALAGVPCDVEIASEFRYRKSAVRRNSLMITLSQSGETADTLAALRLSKELGYLGSLAICNVPGSSLVRESDLALMTKAGTEIGVASTKAFTTQLTVLLMLVAKLARLKGQDASIEHDIVHGLQALPNRIEQMLSQDKRIEQLAERFSDKHHALFLGRGDQYPIAMEGALKLKEISYIHAEAYAAGELKHGPLALIDAEMPVIVVAPNNELLEKLKSNIEEVRARGGELYVFADGEAGFNGSDNMHIIEMPHVEETIAPIFYTVPLQLLAYHVALIKGTDVDQPRNLAKSVTVE

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 10 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

10
  • GO:1901135 The chemical reactions and pathways involving carbohydrate derivative.
  • GO:0097367 Binding to a carbohydrate derivative.
  • GO:0004360 Catalysis of the reaction: D-fructose 6-phosphate + L-glutamine = D-glucosamine 6-phosphate + L-glutamate.
  • GO:1901137 The chemical reactions and pathways resulting in the formation of carbohydrate derivative.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0046349 The chemical reactions and pathways resulting in the formation of any amino sugar, sugars containing an amino group in place of a hydroxyl group.
  • 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:0006002 The chemical reactions and pathways involving fructose 6-phosphate, also known as F6P. The D-enantiomer is an important intermediate in glycolysis, gluconeogenesis, and fructose metabolism.
  • GO:0006487 A protein glycosylation process in which a carbohydrate or carbohydrate derivative unit is added to a protein via the N4 atom of an asparagine residue.
  • GO:0006047 The chemical reactions and pathways involving UDP-N-acetylglucosamine, a substance composed of N-acetylglucosamine, a common structural unit of oligosaccharides, in glycosidic linkage with uridine diphosphate.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

33 records
Show feature table
Start End DB Term Name
2 241 Gene3D G3DSA:3.60.20.10 Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1
2 241 InterPro IPR029055 Nucleophile aminohydrolases, N-terminal
286 426 ProSiteProfiles PS51464 SIS domain profile.
286 426 InterPro IPR001347 SIS domain
2 609 NCBIfam TIGR01135 glutamine--fructose-6-phosphate transaminase (isomerizing)
2 609 InterPro IPR005855 Glucosamine-fructose-6-phosphate aminotransferase, isomerising
447 594 Gene3D G3DSA:3.40.50.10490 -
2 232 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases)
2 232 InterPro IPR029055 Nucleophile aminohydrolases, N-terminal
458 599 ProSiteProfiles PS51464 SIS domain profile.
458 599 InterPro IPR001347 SIS domain
453 607 CDD cd05009 SIS_GlmS_GlmD_2
453 607 InterPro IPR035490 GlmS/FrlB, SIS domain 2
451 594 FunFam G3DSA:3.40.50.10490:FF:000002 Glutamine--fructose-6-phosphate aminotransferase [isomerizing]
1 609 Hamap MF_00164 Glutamine--fructose-6-phosphate aminotransferase [isomerizing] [glmS].
1 609 InterPro IPR005855 Glucosamine-fructose-6-phosphate aminotransferase, isomerising
289 418 Pfam PF01380 SIS domain
289 418 InterPro IPR001347 SIS domain
462 591 Pfam PF01380 SIS domain
462 591 InterPro IPR001347 SIS domain
248 608 Gene3D G3DSA:3.40.50.10490 -
2 218 ProSiteProfiles PS51278 Glutamine amidotransferase type 2 domain profile.
2 218 InterPro IPR017932 Glutamine amidotransferase type 2 domain
2 240 FunFam G3DSA:3.60.20.10:FF:000006 Glutamine--fructose-6-phosphate aminotransferase [isomerizing]
295 421 CDD cd05008 SIS_GlmS_GlmD_1
295 421 InterPro IPR035466 GlmS/AgaS, SIS domain 1
1 609 PANTHER PTHR10937 GLUCOSAMINE--FRUCTOSE-6-PHOSPHATE AMINOTRANSFERASE, ISOMERIZING
66 174 Pfam PF13522 Glutamine amidotransferase domain
245 609 SUPERFAMILY SSF53697 SIS domain
245 609 InterPro IPR046348 SIS domain superfamily
2 215 CDD cd00714 GFAT
2 215 InterPro IPR047084 Glucosamine-fructose-6-phosphate aminotransferase, isomerising, N-terminal domain
247 450 FunFam G3DSA:3.40.50.10490:FF:000001 Glutamine--fructose-6-phosphate aminotransferase [isomerizing]

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 #1
0.989
Likely same site as P2Rank 2 4.4 Å 22 shared residues 100% of smaller site
Unusual size
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Surrounding area
Site 2 FPocket #35
0.362
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Surrounding area

Binding pockets · P2Rank

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

Site 1 P2Rank #1
0.712
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.435
Likely same site as FPocket 1 4.4 Å 22 shared residues 100% of smaller site
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.291
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.22
Show in viewer
Surrounding area
Site 5 P2Rank #5
0.064
Show in viewer
Surrounding area
Residue sets
UniProt: Active site:2-2 Nucleophile; for GATase activity
UniProt: Active site:604-604 For Fru-6P isomerization 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_A0A0H3H4X5
AlphaFold DB full sequence Viewing
ColabFold KP13_00029
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 and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 8 records from similar proteins
Structural ligands 7 0 loaded crystals
Measured bioactivity 1 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
AGP PDB via homolog 261.2 Da · LogP -3.50 · TPSA 173.7 Open detail RCSB PDB
F6R PDB via homolog Detail RCSB PDB
G6Q PDB via homolog Detail RCSB PDB
HGA PDB via homolog Detail RCSB PDB
M6R 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
AGP RCSB PDB P17169 261.2 Da LogP -3.50 TPSA 173.7 1 viol. ✓ Clean C([C@@H]([C@H]([C@@H]([C@@H](COP(=O)(O)O)O)O)O)…
F6R RCSB PDB P17169 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
G6Q RCSB PDB P17169 260.1 Da LogP -3.26 TPSA 164.8 1 viol. ✓ Clean C([C@H]([C@H]([C@@H]([C@H](C=O)O)O)O)O)OP(=O)(O…
HGA RCSB PDB P17169 162.1 Da LogP -1.32 TPSA 112.7 ✓ Ro5 ✓ Clean C(CC(=O)NO)[C@@H](C(=O)O)N
M6R RCSB PDB P53704 261.2 Da LogP -3.50 TPSA 173.7 1 viol. ✓ Clean C([C@H]([C@H]([C@@H]([C@@H](COP(=O)(O)O)O)O)O)N…
UD1 RCSB PDB P53704 607.4 Da LogP -4.65 TPSA 305.9 3 viol. ✓ Clean CC(=O)N[C@@H]1[C@H]([C@@H]([C@H](O[C@@H]1O[P@@]…
UD2 RCSB PDB Q06210-2 607.4 Da LogP -4.65 TPSA 305.9 3 viol. ✓ Clean CC(=O)N[C@@H]1[C@H]([C@H]([C@H](O[C@@H]1O[P@@](…

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.