Protein target profile

VK055_2170

FAD binding domain protein

Genome: KpATCC43816 Gene: AIK80775.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GP09
Length 561
Pocket druggability 1
Direct ligand evidence 0 56 total records
Functional annotation 0 EC 2 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
No hit
Gut microbiome similarity
0.4% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Localization

Localization
CytoplasmicMembrane

Structure confidence

ColabFold pLDDT
95.33 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 1
Structure A0A0H3GP09
Pocket Pocket 1
P2Rank 0.995
Structure A0A0H3GP09
Pocket Pocket 1
ColabFold model
FPocket 1 · Pocket 1
P2Rank 0.995 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 20 / 4744 genomes with a hit
Prevalence 0.4%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MKVDVLVVGSGAAGLSAAVTAAMHGASVMVAEKASVLGGTSAWSGGWLWIPRNPLARAEGIDEAADAPLTYLQHEMGGEAADIRLQTFLRYGPEMVEFFHQRTAVQFLSGSAMPDFHPSPGAANGGRSVTAQPYDGRLLGDWLHRLRPPLETISLGGMGIAGGADMAHFFNATRSPRSALYAARRLLRHGWQRLRAGRGQHLVNGNALVARLLRSALDAGVRFQLNAPVVRLLQGPPGVSGAVLRSDGGEIHVEAGAVVLACGGFPHDRQRLAQVVPHAAEGYGHFSAAPPDNQGEGIRLGESVGGQFDTSLRHPLAWAPVSRVTLASGQQLMFPHLVERAKPGVIAVLPNGKRFVNEADSYHDFIAALLAATPAGDTPQAWLLADRRALRRYGLGHARPFPFTPTAWLRTSYLQRGNTLAELAKQCAIDANALAETVERFNHFASAGEDVDFHRGASAYNRAQGDHQVTLGPLREGPFYAVRILPGSLGTFSGLQTDEHARVLDEQQQPIPGLYAIGNDMSSVMRGYYPSGGITLGPAMTFGYLVGKNLAKKTNINNNIA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

2 GO

Gene Ontology (GO)

2
  • GO:0016491 Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
  • GO:0008202 The chemical reactions and pathways involving steroids, compounds with a 1,2,cyclopentanoperhydrophenanthrene nucleus.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

19 records
Show feature table
Start End DB Term Name
4 536 InterPro IPR003953 FAD-dependent oxidoreductase 2, FAD binding domain
3 553 PANTHER PTHR43400 FUMARATE REDUCTASE
4 26 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
511 526 PRINTS PR00411 Pyridine nucleotide disulphide reductase class-I signature
314 495 SUPERFAMILY SSF56425 Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain
314 495 InterPro IPR027477 Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain superfamily
5 16 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
1 553 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain
1 553 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
5 27 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
4 536 Pfam PF00890 FAD binding domain
1 4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
22 561 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
432 552 Gene3D G3DSA:3.50.50.60 -
432 552 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
1 381 Gene3D G3DSA:3.50.50.60 -
1 381 InterPro IPR036188 FAD/NAD(P)-binding domain superfamily
17 21 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
1 21 Phobius SIGNAL_PEPTIDE Signal peptide region

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
1.0
Likely same site as P2Rank 1 1.2 Å 73 shared residues 87% of smaller site
Unusual size
Show in viewer
Surrounding area

Binding pockets · P2Rank

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

Site 1 P2Rank #1
0.995
Likely same site as FPocket 1 1.2 Å 73 shared residues 87% of smaller site
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.429
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.15
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.099
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Surrounding area
Site 5 P2Rank #5
0.027
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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_A0A0H3GP09
AlphaFold DB full sequence Viewing
ColabFold VK055_2170
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.

56 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 6 records from similar proteins
Structural ligands 6 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
ANB PDB via homolog 284.4 Da · LogP 3.86 · TPSA 34.1 Open detail RCSB PDB
ASD PDB via homolog Detail RCSB PDB
FUM PDB via homolog Detail RCSB PDB
MEZ PDB via homolog Detail RCSB PDB
SIN 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
ANB RCSB PDB Q9RA02 284.4 Da LogP 3.86 TPSA 34.1 ✓ Ro5 ✓ Clean C[C@]12CC[C@H]3[C@H]([C@@H]1CCC2=O)CCC4=CC(=O)C…
ASD RCSB PDB Q0S4Q9 286.4 Da LogP 4.09 TPSA 34.1 ✓ Ro5 ✓ Clean C[C@]12CCC(=O)C=C1CC[C@@H]3[C@@H]2CC[C@]4([C@H]…
FUM RCSB PDB P0C278 116.1 Da LogP -0.29 TPSA 74.6 ✓ Ro5 ✓ Clean C(=C/C(=O)O)\C(=O)O
MEZ RCSB PDB P0C278 130.1 Da LogP 0.10 TPSA 74.6 ✓ Ro5 ✓ Clean C/C(=C\C(=O)O)/C(=O)O
SIN RCSB PDB P83223 118.1 Da LogP -0.06 TPSA 74.6 ✓ Ro5 ✓ Clean C(CC(=O)O)C(=O)O
TEO RCSB PDB P0C278 132.1 Da LogP -3.14 TPSA 103.7 ✓ Ro5 ✓ Clean C(=C(\O)/[O-])\[C@H](C(=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.