Protein target profile

VK055_1403

membrane glycosyltransferase synthesis of membrane-derived oligosaccharide

Genome: KpATCC43816 Gene: AIK80026.1 mdoH 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GMR0
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Length 842
Pocket druggability 0.982
Functional annotation 1 EC 3 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.

Main supporting evidence

No similar human protein detected The current BLAST sequence screen did not find a significant human match, lowering apparent off-target risk. Core gene across strains Marked as conserved by both pan-genome tools: Roary and CoreCruncher. Second pocket predictor agrees P2Rank predicted binding-site probability 0.99. Structure available AlphaFold DB model + ColabFold model

Risks to review

Microbiome similarity 101 of 4744 screened genomes (2.1%) have a significant similarity hit. This target also has a predicted binding pocket (FPocket 0.98) — check the ligand evidence before deprioritizing on off-target risk alone. Best pocket may be a modeling artifact FPocket selected-pocket score 0.98, but this pocket's geometry is unusually large/diffuse compared to this protein's other predicted pockets — may reflect a low-confidence or disordered model region rather than a real cavity.

Evidence gaps

No metabolic context No SBML/network-derived reaction evidence is loaded for this protein. No ligand evidence No experimental PDB ligands, measured ChEMBL bioactivity, or proposed ZINC compound records are available.
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
No hit
Gut microbiome similarity
2.1% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
N
DEG identity (%)
39.011 Higher values support similarity to known essential genes.

Localization

Localization
CytoplasmicMembrane

Structure confidence

ColabFold pLDDT
89.4 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 0.982
Structure A0A0H3GMR0
Pocket Pocket 61
P2Rank 0.987
Structure A0A0H3GMR0
Pocket Pocket 1
ColabFold model
FPocket 0.922 · Pocket 64
P2Rank 0.986 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 101 / 4744 genomes with a hit
Prevalence 2.1%

Cross-references

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

Sequence

UniProt A0A0H3GMR0

Sequence

Primary amino-acid sequence viewer.

MNKITKYIDALPLSDAEKSALPDTSLQAVHQALDDDHQTFAREDDSPLGSVKARLAHSWPDSLSGDQLVKDDEGRTQLHAMPKAKRSSMIPDPWRTNPVGRFWDRLRGRDVTPRYLSRLTQEERESEQKWRTVGTIRRYILLLLTLSQTVVATWYMKTILPYQGWALINPADMVGQNLWISFMQLLPYVLQSGILILFAVLFCWVSAGFWTALMGFLQLLIGRDKYSISASTVGDEPLNPAHRTALIMPICNEDVDRVFAGLRATWESVKATGNAAHFDVYILSDSYNPDICVAEQKAWMELIAEVQGEGQIFYRRRRRRVKRKSGNIDDFCRRWGSQYSYMVVLDADSVMTGECLSSLVRLMEANPNAGIIQSSPRASGMDTLYARCQQFATRVYGPLFTAGLHFWQLGESHYWGHNAIIRVKPFIEHCALAPLPGEGNFAGSILSHDFVEAALMRRAGWGVWIAYDLPGSYEELPPNLLDELKRDRRWCQGNLMNFRLFLVRGMHPVHRAVFLTGVMSYLSAPLWFMFLALSTALQVVHALTEPQYFLQPRQLFPVWPQWRPELAIALFASTMVLLFLPKLLSIILVWCKGPKEYGGFIRVTLSLLLEVLFSVLLAPVRMLFHTVFVVSAFLGWEVVWNSPQRDDDSTPWGEAFMRHGSQLLLGLVWAVGMAWLDLRFLFWLAPIVVSLILSPFVSAISSRATVGLRTKRWKLFLIPEEYSPPQVLKDTDAYLTMNRQRSLDDGFMHAVFNPSFNALATAMATARHRQGHILEIARERHVEQALNETPDKLNRDRRLVLLSDPVTMSRLHYRVWAAPEKYSSWVNAYQQLALNPLALKTK

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 3 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

3
  • GO:0016758 Catalysis of the transfer of a hexosyl group from one compound (donor) to another (acceptor).
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
  • GO:0009250 The chemical reactions and pathways resulting in the formation of glucans, polysaccharides consisting only of glucose residues.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

34 records
Show feature table
Start End DB Term Name
682 706 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
597 616 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
246 428 Pfam PF00535 Glycosyl transferase family 2
246 428 InterPro IPR001173 Glycosyltransferase 2-like
617 621 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
660 676 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
641 659 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
49 827 PANTHER PTHR43867 CELLULOSE SYNTHASE CATALYTIC SUBUNIT A [UDP-FORMING]
244 532 SUPERFAMILY SSF53448 Nucleotide-diphospho-sugar transferases
244 532 InterPro IPR029044 Nucleotide-diphospho-sugar transferases
622 640 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
512 534 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
680 702 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
194 216 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
568 590 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
139 156 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
244 497 CDD cd04191 Glucan_BSP_MdoH
512 533 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
222 511 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
707 842 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
591 596 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
603 625 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
238 468 Gene3D G3DSA:3.90.550.10 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A
238 468 InterPro IPR029044 Nucleotide-diphospho-sugar transferases
63 745 Hamap MF_01072 Glucans biosynthesis glucosyltransferase H [mdoH].
63 745 InterPro IPR023725 Glucan biosynthesis glucosyltransferase H
1 138 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
566 590 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
157 187 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
188 221 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
677 681 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
534 565 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
139 156 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
237 468 FunFam G3DSA:3.90.550.10:FF:000047 Glucans biosynthesis glucosyltransferase H

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 #61
0.982
Unusual size
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Surrounding area
Site 2 FPocket #58
0.838
Unusual size
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Surrounding area
Site 3 FPocket #59
0.803
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Surrounding area
Site 4 FPocket #49
0.661
Likely same site as P2Rank 3 5.3 Å 11 shared residues 85% of smaller site
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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
0.987
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Surrounding area
Site 2 P2Rank #2
0.973
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Surrounding area
Site 3 P2Rank #3
0.466
Likely same site as FPocket 49 5.3 Å 11 shared residues 85% of smaller site
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Surrounding area
Site 4 P2Rank #4
0.394
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Surrounding area
Site 5 P2Rank #5
0.335
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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_A0A0H3GMR0
AlphaFold DB — — full sequence — Viewing
ColabFold VK055_1403
ColabFold — — full sequence — Loaded