Protein target profile

VK055_3061

phosphoglucose isomerase family protein

Genome: KpATCC43816 Gene: AIK81646.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GGT9
Length 549
Pocket druggability 0.764
Direct ligand evidence 0 61 total records
Functional annotation 1 EC 8 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 (%)
70.241 Lower values reduce human off-target concern.
Human E-value
0.0
Gut microbiome similarity
17.1% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
96.175 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
98.42 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 0.764
Structure A0A0H3GGT9
Pocket Pocket 2
P2Rank 0.648
Structure A0A0H3GGT9
Pocket Pocket 1
ColabFold model
FPocket 0.595 · Pocket 4
P2Rank 0.771 · Pocket 1
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 811 / 4744 genomes with a hit
Prevalence 17.1%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MKNINPTQTSAWQALQKHFDEMKDVTISELFAKDSDRFSKFSATFDDLMLVDFSKNRITEETLAKLQDLAKETDLAGAIKSMFSGEKINRTEDRAVLHVALRNRSNTPIVVDGKDVMPEVNAVLEKMKTFSEAIISGSWKGYTGKPITDVVNIGIGGSDLGPFMVTEALRPYKNHLNMHFVSNVDGTHIAEVLKNVNPETTLFLVASKTFTTQETMTNAHSARDWFLATAGDDKHVAKHFAALSTNAKAVGEFGIDTANMFEFWDWVGGRYSLWSAIGLSIILSVGFDNFVELLSGAHAMDKHFSTTPAEKNLPVLLALIGIWYNNFFGAETEAILPYDQYMHRFAAYFQQGNMESNGKYVDRNGHAVDYQTGPIIWGEPGTNGQHAFYQLIHQGTKMVPCDFIAPAITHNPLSDHHQKLLSNFFAQTEALAFGKSREVVEQEYRDQGKDPATLEHVVPFKVFEGNRPTNSILLREITPFSLGALIALYEHKIFTQGAILNIFTFDQWGVELGKQLANRILPELKDGSKVSSHDSSTNGLINRYKAWRA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 8 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

8
  • GO:0004347 Catalysis of the reaction: alpha-D-glucose 6-phosphate = beta-D-fructose 6-phosphate.
  • GO:0006094 The formation of glucose from noncarbohydrate precursors, such as pyruvate, amino acids and glycerol.
  • GO:0097367 Binding to a carbohydrate derivative.
  • GO:1901135 The chemical reactions and pathways involving carbohydrate derivative.
  • GO:0006096 The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP and the reduction of NAD(P) to NAD(P)H. Glycolysis begins with the metabolism of a carbohydrate to generate products that can enter the pathway and ends with the production of pyruvate. Pyruvate may be converted to acetyl-coenzyme A, ethanol, lactate, or other small molecules.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0048029 Binding to a monosaccharide. Monosaccharides are the simplest carbohydrates; they are polyhydroxy aldehydes H[CH(OH)]nC(=O)H or polyhydroxy ketones H[CHOH]nC(=O)[CHOH]mH with three or more carbon atoms. They form the constitutional repeating units of oligo- and polysaccharides.
  • GO:0051156 The chemical reactions and pathways involving glucose 6-phosphate, a monophosphorylated derivative of glucose with the phosphate group attached to C-6.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

36 records
Show feature table
Start End DB Term Name
331 520 CDD cd05016 SIS_PGI_2
331 520 InterPro IPR035482 Phosphoglucose isomerase, SIS domain 2
9 547 ProSiteProfiles PS51463 Glucose-6-phosphate isomerase family profile.
9 547 InterPro IPR001672 Phosphoglucose isomerase (PGI)
121 283 CDD cd05015 SIS_PGI_1
121 283 InterPro IPR035476 Phosphoglucose isomerase, SIS domain 1
52 541 Pfam PF00342 Phosphoglucose isomerase
52 541 InterPro IPR001672 Phosphoglucose isomerase (PGI)
497 514 ProSitePatterns PS00174 Phosphoglucose isomerase signature 2.
497 514 InterPro IPR018189 Phosphoglucose isomerase, conserved site
507 549 Gene3D G3DSA:1.10.1390.10 -
507 549 InterPro IPR023096 Phosphoglucose isomerase, C-terminal
8 546 PANTHER PTHR11469 GLUCOSE-6-PHOSPHATE ISOMERASE
8 546 InterPro IPR001672 Phosphoglucose isomerase (PGI)
98 291 Gene3D G3DSA:3.40.50.10490 -
11 506 Gene3D G3DSA:3.40.50.10490 -
507 549 FunFam G3DSA:1.10.1390.10:FF:000001 Glucose-6-phosphate isomerase
338 359 PRINTS PR00662 Glucose-6-phosphate isomerase signature
338 359 InterPro IPR001672 Phosphoglucose isomerase (PGI)
497 510 PRINTS PR00662 Glucose-6-phosphate isomerase signature
497 510 InterPro IPR001672 Phosphoglucose isomerase (PGI)
483 497 PRINTS PR00662 Glucose-6-phosphate isomerase signature
483 497 InterPro IPR001672 Phosphoglucose isomerase (PGI)
261 279 PRINTS PR00662 Glucose-6-phosphate isomerase signature
261 279 InterPro IPR001672 Phosphoglucose isomerase (PGI)
150 169 PRINTS PR00662 Glucose-6-phosphate isomerase signature
150 169 InterPro IPR001672 Phosphoglucose isomerase (PGI)
465 483 PRINTS PR00662 Glucose-6-phosphate isomerase signature
465 483 InterPro IPR001672 Phosphoglucose isomerase (PGI)
46 524 Hamap MF_00473 Glucose-6-phosphate isomerase [pgi].
46 524 InterPro IPR001672 Phosphoglucose isomerase (PGI)
98 291 FunFam G3DSA:3.40.50.10490:FF:000004 Glucose-6-phosphate isomerase
5 548 SUPERFAMILY SSF53697 SIS domain
5 548 InterPro IPR046348 SIS domain superfamily
265 278 ProSitePatterns PS00765 Phosphoglucose isomerase signature 1.
265 278 InterPro IPR018189 Phosphoglucose isomerase, conserved site

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
0.764
Show in viewer
Surrounding area
Site 2 FPocket #1
0.38
Likely same site as P2Rank 3 2.8 Å 15 shared residues 100% of smaller site
Unusual size
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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
0.648
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.268
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.176
Likely same site as FPocket 1 2.8 Å 15 shared residues 100% of smaller site
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.081
Show in viewer
Surrounding area
Site 5 P2Rank #5
0.066
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Surrounding area
Residue sets
UniProt: Active site:355-355 Proton donor
UniProt: Active site:386-386
UniProt: Active site:514-514
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_A0A0H3GGT9
AlphaFold DB full sequence Viewing
ColabFold VK055_3061
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.

61 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 11 records from similar proteins
Structural ligands 9 0 loaded crystals
Measured bioactivity 2 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
6PG PDB via homolog 276.1 Da · LogP -3.38 · TPSA 185.0 Open detail RCSB PDB
A5P PDB via homolog Detail RCSB PDB
DER PDB via homolog Detail RCSB PDB
E4P PDB via homolog Detail RCSB PDB
G6Q 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
6PG RCSB PDB Q9N1E2 276.1 Da LogP -3.38 TPSA 185.0 1 viol. ✓ Clean C([C@H]([C@H]([C@@H]([C@H](C(=O)O)O)O)O)O)OP(=O…
A5P RCSB PDB P06745 232.1 Da LogP -2.83 TPSA 147.7 1 viol. ✓ Clean C([C@H]([C@@H]([C@@H](COP(=O)(O)O)O)O)O)O
DER RCSB PDB P06745 216.1 Da LogP -2.10 TPSA 144.5 ✓ Ro5 ✓ Clean C([C@@H]([C@H](C(=O)O)O)O)OP(=O)(O)O
E4P RCSB PDB P06745 200.1 Da LogP -1.98 TPSA 124.3 ✓ Ro5 ✓ Clean C([C@H]([C@H](C=O)O)O)OP(=O)(O)O
G6Q RCSB PDB P13377 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…
O1B RCSB PDB P06744 288.2 Da LogP -3.75 TPSA 182.6 1 viol. ✓ Clean C(CNC(=O)[C@H]([C@@H]([C@@H](COP(=O)(O)O)O)O)O)N
PA5 RCSB PDB Q9N1E2 246.1 Da LogP -2.74 TPSA 164.8 1 viol. ✓ Clean C([C@H]([C@H]([C@@H](C(=O)O)O)O)O)OP(=O)(O)O
PG6 RCSB PDB P06744 266.3 Da LogP 0.35 TPSA 55.4 ✓ Ro5 ✓ Clean COCCOCCOCCOCCOCCOC
S6P RCSB PDB P06745 262.2 Da LogP -3.47 TPSA 167.9 1 viol. ✓ Clean C([C@@H]([C@H]([C@@H]([C@@H](COP(=O)(O)O)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.