KpATCC43816 Protein target profile

type VI secretion valine-glycine repeat protein G

Accession: VK055_1099

Gene: AIK79722.1 vgrG 3D evidence: ColabFold model Metabolism Not in network
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Length 573
Pocket druggability (P2Rank · ColabFold model) 0.21
Functional annotation 0 EC 0 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.

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. Moderate predicted binding pocket FPocket selected-pocket score 0.42. This supports review but is not experimental validation. Structure available ColabFold model

Risks to review

Microbiome similarity 28 of 4744 screened genomes (0.6%) have a significant similarity hit. This target also has a predicted binding pocket (P2Rank 0.21) — check the ligand evidence before deprioritizing on off-target risk alone. Mixed conservation Core/accessory calls are not fully concordant. Weak second pocket-predictor signal P2Rank predicted binding-site probability 0.21.

Evidence gaps

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
0.6% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
91.98 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

ColabFold / curated 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) 0.21
Structure CB_VK055_1099
Pocket Pocket 1
Druggability (FPocket) 0.424
Structure CB_VK055_1099
Pocket Pocket 9
ColabFold model
P2Rank 0.21 · Pocket 1
FPocket 0.424 · Pocket 9
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 28 / 4744 genomes with a hit
Prevalence 0.6%

Metabolic context

Reactions catalyzed, pathway membership, and centrality in the genome-scale metabolic network.

This protein is not associated with the imported metabolic network for this genome.

Browse the genome's metabolic network

Imported from KpATCC43816.sbml · 2026-07-09

Sequence

Primary amino-acid sequence viewer.

MSSVKSLLFSHNHHLLSVKGCEAGLDVLAFEGDEALSQPFRYRIEFTSADHAISKEMMLMKAASLTLQAPVAQGFGINVQQPVRVIQGVVTGFERLSTSRDETHYALTLQPRLALLNRSHQNAIYQDQSVPQIVEKILRERHGLRGQDFLFSLTKTYPRREQVMQYGEDDLRFITRLLGEVGIWFRFTADTRLHIDVAEFCDSQQGYEKGLTLPSVPPSGQQSAGVDAVWEMACRHRVVEQQVSTRDYNYREATADMNAQVDVTRGETTTFGEAYHWGDNYLTAGNVHDRHPAPESGAFYARLRHERYLNGQTRMQATTSCPTLCPGQVLKVTGGEEVAGEFADGVLITAMHSHARRDADFAVEFAGIPDSPDVGYRPEPGARPVMAGTLPARVTSTRENDTYGHIDKHGRYRVNMLFDRARWETGFESLWVRQSRPYAGDTYGLHLPLLAGTEVAIGFEDGNPDRPYIAGVLHDSAHGDHVTIRNDKRNVLRTPANNKIRLDDERGKEHIKLSTEYGGKSQLNLGHLVDSDRQPRGEGFELRTDSWGAIRAQKGIFISADGQAQAQGQVLAM

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

Subcellular localization

Localization
Cytoplasmic

No GO or EC annotations are currently loaded for this protein.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

17 records
Show feature table
Start End DB Term Name
389 473 Gene3D G3DSA:2.40.50.230 -
389 473 InterPro IPR037026 Vgr protein, OB-fold domain superfamily
26 517 NCBIfam TIGR01646 type VI secretion system tip protein VgrG
26 517 InterPro IPR006533 Type VI secretion system, RhsGE-associated Vgr protein
383 473 SUPERFAMILY SSF69255 gp5 N-terminal domain-like
295 371 Gene3D G3DSA:2.30.110.50 -
14 169 Gene3D G3DSA:2.30.110.50 -
82 195 PANTHER PTHR32305 -
407 474 Pfam PF04717 Type VI secretion system/phage-baseplate injector OB domain
407 474 InterPro IPR006531 Gp5/Type VI secretion system Vgr protein, OB-fold domain
17 516 NCBIfam TIGR03361 type VI secretion system tip protein TssI/VgrG N-terminal domain
17 516 InterPro IPR017847 Type VI secretion system, RhsGE-associated Vgr family subset
493 573 Pfam PF13296 Putative type VI secretion system Rhs element Vgr
493 573 InterPro IPR028244 Putative type VI secretion system, Rhs element associated Vgr domain
203 384 SUPERFAMILY SSF69279 Phage tail proteins
34 355 Pfam PF05954 Phage tail baseplate hub (GPD)
15 192 SUPERFAMILY SSF69279 Phage tail proteins

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 · P2Rank

Druggability (P2Rank): high ≥ 0.5 · medium 0.2–0.49 · low < 0.2

Pocket 1 P2Rank #1
0.21
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Surrounding area
Pocket 2 P2Rank #2
0.201
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Surrounding area
Pocket 3 P2Rank #3
0.158
Likely same site as FPocket 38 7.2 Å 6 shared residues 60% of smaller site
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Surrounding area
Pocket 4 P2Rank #4
0.101
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Surrounding area
Pocket 5 P2Rank #5
0.082
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Surrounding area

Binding pockets · FPocket

Druggability (FPocket): high ≥ 0.7 · medium 0.4–0.69 · low < 0.4

Pocket 1 FPocket #9
0.424
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Surrounding area
Pocket 2 FPocket #38
0.4
Likely same site as P2Rank 3 7.2 Å 6 shared residues 60% of smaller site
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Surrounding area
Pocket 3 FPocket #25
0.209
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Surrounding area
All structural evidence 0 experimental · 1 predicted

Structural evidence

0 + 1

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
ColabFold VK055_1099
ColabFold — — full sequence — Viewing