KpATCC43816 Protein target profile

acyl-CoA dehydrogenase, C-terminal domain protein

Accession: VK055_0351

Gene: AIK78977.1 3D evidence: AlphaFold DB model + ColabFold model Metabolism Not in network UniProt A0A0H3GPF1
Length 383
Pocket druggability (P2Rank · AlphaFold DB model) 0.869
Direct ligand evidence 0 55 total records
Functional annotation 0 EC 2 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.

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 (%)
25.14 Lower values reduce human off-target concern.
Human E-value
9.19e-15
Gut microbiome similarity
0.3% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
95.48 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) 0.869
Structure A0A0H3GPF1
Pocket Pocket 1
Druggability (FPocket) 0.817
Structure A0A0H3GPF1
Pocket Pocket 23
ColabFold model
P2Rank 0.893 · Pocket 1
FPocket 0.162 · Pocket 6
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 15 / 4744 genomes with a hit
Prevalence 0.3%

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.

MIHPERDDWARQLTALRQQMAEQAASLDASGEFPRRNIDHLRAGGWLSLAVPSSCGGAGATLAQLQQVIAAIAWGEPATALIVCMQYLHHLRLAENDAWHAPLRQQVFHDAVEHGGLINSLRVEPELGSPARGGLPDTVATRRAEGWDISGHKIYTTGIEGLRWLAVWARSDDNPPLVGTWLVAGDSPGISVVKSWDHAGMRATGSHEVIFNHVRVAAEHAVDVWPADAPPAAQAEPFRLFANRQTALLAAIYDSIAHAAHDWLVRWLAGRVPAGLGHPLSRLPRVQEKVGQIAGLLLVNRSLLEQAAALRFSAIEANLAKVTITDNAIQAVNIALELTGNHGLSRQNPLERHYRNVLCGRVHTPQSDSAWLAAGNFVFQSQG

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

2 GO

Subcellular localization

Localization
Cytoplasmic

Gene Ontology (GO)

2
  • GO:0050660 Binding to FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
  • GO:0016627 Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

18 records
Show feature table
Start End DB Term Name
230 382 Gene3D G3DSA:1.20.140.10 -
16 83 Pfam PF02771 Acyl-CoA dehydrogenase, N-terminal domain
16 83 InterPro IPR013786 Acyl-CoA dehydrogenase/oxidase, N-terminal
256 364 Pfam PF08028 Acyl-CoA dehydrogenase, C-terminal domain
256 364 InterPro IPR013107 Acyl-CoA dehydrogenase, C-terminal domain
2 113 Gene3D G3DSA:1.10.540.10 -
2 113 InterPro IPR037069 Acyl-CoA dehydrogenase/oxidase, N-terminal domain superfamily
129 223 Gene3D G3DSA:2.40.110.10 -
129 223 InterPro IPR046373 Acyl-CoA oxidase/dehydrogenase, middle domain superfamily
17 367 PANTHER PTHR43831 ISOBUTYRYL-COA DEHYDROGENASE
124 361 CDD cd00567 ACAD
124 214 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain
124 214 InterPro IPR006091 Acyl-CoA oxidase/dehydrogenase, middle domain
247 378 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like
247 378 InterPro IPR036250 Acyl-CoA dehydrogenase-like, C-terminal
2 382 PIRSF PIRSF016578 PIGM
16 222 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like
16 222 InterPro IPR009100 Acyl-CoA dehydrogenase/oxidase, N-terminal and middle domain superfamily

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
0.869
Likely same site as FPocket 23 0.7 Å 26 shared residues 100% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.266
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Surrounding area
Pocket 3 P2Rank #3
0.264
Show in viewer
Surrounding area
Pocket 4 P2Rank #4
0.125
Show in viewer
Surrounding area
Pocket 5 P2Rank #5
0.105
Show in viewer
Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #23
0.817 Unusual size
Likely same site as P2Rank 1 0.7 Å 26 shared residues 100% of smaller site
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_A0A0H3GPF1
AlphaFold DB full sequence Viewing
ColabFold VK055_0351
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.

55 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 5 records from similar proteins
Structural ligands 5 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
AKM PDB via homolog 561.4 Da · LogP -1.72 · TPSA 262.3 Open detail RCSB PDB
CAA PDB via homolog Detail RCSB PDB
COS PDB via homolog Detail RCSB PDB
FDA PDB via homolog Detail RCSB PDB
TYD 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
AKM RCSB PDB B3TMR1 561.4 Da LogP -1.72 TPSA 262.3 3 viol. ✓ Clean C[C@@H]1C([C@@](C[C@H](O1)OP(=O)(O)OP(=O)(O)OC[…
CAA RCSB PDB P15651 851.6 Da LogP -1.36 TPSA 380.7 3 viol. ✓ Clean CC(=O)CC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)CO[P…
COS RCSB PDB A0A031WJ47 799.6 Da LogP -1.02 TPSA 346.6 3 viol. ✓ Clean CC(C)(CO[P@](=O)(O)O[P@](=O)(O)OC[C@@H]1[C@H]([…
FDA RCSB PDB B4EGC8 787.6 Da LogP -1.75 TPSA 363.3 3 viol. ✓ Clean Cc1cc2c(cc1C)N(C3=C(N2)C(=O)NC(=O)N3)C[C@@H]([C…
TYD RCSB PDB B3TMR1 402.2 Da LogP -1.28 TPSA 197.6 ✓ Ro5 ✓ Clean CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)CO[P@]…

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.

Cross-references

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