Genome KpKP13

Protein target profile

Electron transport complex protein rnfG

Accession: KP13_05172

Gene: rnfG AHE44291.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GP60
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Length 207
Pocket druggability (P2Rank · AlphaFold DB model) 0.02
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.

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. Structure available AlphaFold DB model + ColabFold model

Risks to review

Microbiome similarity 131 of 4744 screened genomes (2.8%) have a significant similarity hit. Weak predicted binding pocket FPocket selected-pocket score 0.30. Weak second pocket-predictor signal P2Rank predicted binding-site probability 0.02.

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
2.8% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
80.583 Higher values support similarity to known essential genes.
DEG E-value
2.61e-127 Smaller values mean stronger essential-gene similarity.

Structure confidence

ColabFold pLDDT
92.96 0-100 confidence; >70 supports local structural interpretation.

Binding-site evidence

AlphaFold DB / UniProt 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) 0.02
Structure A0A0H3GP60
Pocket Pocket 1
Druggability (FPocket) 0.296
Structure A0A0H3GP60
Pocket Pocket 3
ColabFold model
P2Rank 0.017 · Pocket 1
FPocket 0.332 · Pocket 3
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 131 / 4744 genomes with a hit
Prevalence 2.8%

Cross-references

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

Sequence

UniProt A0A0H3GP60

Sequence

Primary amino-acid sequence viewer.

MMLKTMRKHGVTLALFAAGSTGLTAAINELTKSTIDQQAALQQKALFDQVLPADRYNNDLLKSCYLVSAPALGKGQHKVWIAKNNDRPIGAVMEATAPDGYSGAIQLLVAADFSGTVLGTRVTEHHETPGLGDKIELRLSDWITHFAGKVIHGQGDSHWAVKKDGGDFDQFTGATITPRAVVNAVKRAGLYAQTLPAQLPEFTACGE

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Subcellular localization

Localization
Periplasmic

Enzyme Commission (EC)

1

Gene Ontology (GO)

5
  • 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:0010181 Binding to flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
  • GO:0022900 A process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors.
  • GO:0009055 A molecular function representing the directed movement of electrons from one molecular entity to another, typically mediated by electron carriers or acceptors, resulting in the transfer of energy and/or the reduction-oxidation (redox) transformation of chemical species. This activity is fundamental to various biological processes, including cellular respiration and photosynthesis, as well as numerous enzymatic reactions involved in metabolic pathways.
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

19 records
Show feature table
Start End DB Term Name
19 25 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
1 25 Phobius SIGNAL_PEPTIDE Signal peptide region
2 205 PANTHER PTHR36118 ION-TRANSLOCATING OXIDOREDUCTASE COMPLEX SUBUNIT G
2 205 InterPro IPR010209 Ion-translocating oxidoreductase complex, subunit RnfG/RsxG
1 25 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM
10 193 NCBIfam TIGR01947 RnfABCDGE type electron transport complex subunit G
10 193 InterPro IPR010209 Ion-translocating oxidoreductase complex, subunit RnfG/RsxG
1 25 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM
1 203 PIRSF PIRSF006091 E_trnsport_RnfG
1 203 InterPro IPR010209 Ion-translocating oxidoreductase complex, subunit RnfG/RsxG
10 18 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
26 207 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
100 188 Pfam PF04205 FMN-binding domain
100 188 InterPro IPR007329 FMN-binding
100 192 SMART SM00900 FMN_bind_2
100 192 InterPro IPR007329 FMN-binding
3 194 Hamap MF_00479 Ion-translocating oxidoreductase complex subunit G [rsxG].
3 194 InterPro IPR010209 Ion-translocating oxidoreductase complex, subunit RnfG/RsxG
1 9 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.

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
0.02
Show in viewer
Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #3
0.296
Show in viewer
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_A0A0H3GP60
AlphaFold DB — — full sequence — Viewing
ColabFold KP13_05172
ColabFold — — full sequence — Loaded