KpKP13 Protein target profile

Gamma-aminobutyraldehyde dehydrogenase

Accession: KP13_04467

Gene: prr AHE44341.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A6T9T4
Length 481
Pocket druggability (P2Rank · AlphaFold DB model) 0.86
Direct ligand evidence 0 116 total records
Functional annotation 0 EC 5 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
Hit
Human identity (%)
54.386 Lower values reduce human off-target concern.
Human E-value
3.74e-11
Gut microbiome similarity
1.8% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
41.266 Higher values support similarity to known essential genes.
DEG E-value
5.46e-121 Smaller values mean stronger essential-gene similarity.

Structure confidence

ColabFold pLDDT
97.18 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) 0.86
Structure A6T9T4
Pocket Pocket 1
Druggability (FPocket) 0.858
Structure A6T9T4
Pocket Pocket 1
ColabFold model
P2Rank 0.889 · Pocket 1
FPocket 0.903 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 87 / 4744 genomes with a hit
Prevalence 1.8%

Sequence

Primary amino-acid sequence viewer.

MKQDNAMQHNLLINGKLVAGEGEKVPVYNPATGEVILEIAEATAAQVDAAVEAADRAFDAWSQTTPKTRAECLLKLADAISAQAETLAQLESLNCGKPLHCVINDEMPAIVDVFRFFAGAARCLPGMAAGEYLEGHTSMIRRDPVGVVASIAPWNYPLMMAAWKLAPALAAGNCVVIKPSEITPLTALKLAELAKDIFPEGVINVLFGRGKTVGDPLTAHVKVRMVSLTGSIATGAHIIGHTASSIKRTHMELGGKAPVIVFDDADIDAVVDGVRTFGFYNAGQDCTAACRIYAQQGIYDQLVEKLGAAVASLKMGAPEDAATELGPLSSLAHLERVSAAVEAARALPHIKVVTGGSRADGAGYYFQPTLLAGARQEDAIVQREVFGPVVSVTPFSDEAQALSWANDSQYGLASSVWTKDVGRAHRLSARLQYGCTWVNTHFMLVSEMPHGGQKLSGYGKDMSMYGLEDYTVVRHVMVKHS

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Subcellular localization

Localization
Cytoplasmic

Gene Ontology (GO)

5
  • GO:0019145 Catalysis of the reaction: 4-aminobutanal + NAD+ + H2O = 4-aminobutanoate + NADH + 2 H+.
  • GO:0009447 The chemical reactions and pathways resulting in the breakdown of putrescine, 1,4-diaminobutane; putrescine is the metabolic precursor of spermidine and spermine.
  • 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:0016620 Catalysis of an oxidation-reduction (redox) reaction in which an aldehyde or ketone (oxo) group acts as a hydrogen or electron donor and reduces NAD or NADP.
  • GO:0051287 Binding to nicotinamide adenine dinucleotide, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NAD+, or the reduced form, NADH.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

19 records
Show feature table
Start End DB Term Name
27 478 CDD cd07092 ALDH_ABALDH-YdcW
27 478 InterPro IPR015657 Aminobutyraldehyde dehydrogenase
7 480 Hamap MF_01275 Gamma-aminobutyraldehyde dehydrogenase [patD].
7 480 InterPro IPR017749 Gamma-aminobutyraldehyde dehydrogenase
8 479 SUPERFAMILY SSF53720 ALDH-like
8 479 InterPro IPR016161 Aldehyde/histidinol dehydrogenase
255 445 Gene3D G3DSA:3.40.309.10 Aldehyde Dehydrogenase; Chain A, domain 2
255 445 InterPro IPR016163 Aldehyde dehydrogenase, C-terminal
8 479 PANTHER PTHR11699 ALDEHYDE DEHYDROGENASE-RELATED
19 476 Pfam PF00171 Aldehyde dehydrogenase family
19 476 InterPro IPR015590 Aldehyde dehydrogenase domain
255 448 FunFam G3DSA:3.40.309.10:FF:000010 Gamma-aminobutyraldehyde dehydrogenase
8 479 NCBIfam TIGR03374 aminobutyraldehyde dehydrogenase
8 479 InterPro IPR017749 Gamma-aminobutyraldehyde dehydrogenase
251 258 ProSitePatterns PS00687 Aldehyde dehydrogenases glutamic acid active site.
251 258 InterPro IPR029510 Aldehyde dehydrogenase, glutamic acid active site
20 267 FunFam G3DSA:3.40.605.10:FF:000001 Aldehyde dehydrogenase 1
25 470 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A, domain 1
25 470 InterPro IPR016162 Aldehyde dehydrogenase, N-terminal

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
0.86
Likely same site as FPocket 1 1.0 Å 19 shared residues 100% of smaller site
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Surrounding area
Pocket 2 P2Rank #2
0.848
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Surrounding area
Pocket 3 P2Rank #3
0.064
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Surrounding area
Pocket 4 P2Rank #4
0.031
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Surrounding area
Pocket 5 P2Rank #5
0.019
Likely same site as FPocket 1 7.4 Å 6 shared residues 100% of smaller site
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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 #1
0.858 Unusual size
Likely same site as P2Rank 1 1.0 Å 19 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_A6T9T4
AlphaFold DB full sequence Viewing
ColabFold KP13_04467
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.

116 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 66 records from similar proteins
Structural ligands 9 0 loaded crystals
Measured bioactivity 57 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
7PE PDB via homolog 310.4 Da · LogP 0.10 · TPSA 75.6 Open detail RCSB PDB
B3P PDB via homolog Detail RCSB PDB
BTL PDB via homolog Detail RCSB PDB
CQY PDB via homolog Detail RCSB PDB
CU4 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
7PE RCSB PDB Q9HTJ1 310.4 Da LogP 0.10 TPSA 75.6 ✓ Ro5 ✓ Clean CCOCCOCCOCCOCCOCCOCCO
B3P RCSB PDB A0A0H2X0S3 282.3 Da LogP -4.01 TPSA 145.4 1 viol. ✓ Clean C(CNC(CO)(CO)CO)CNC(CO)(CO)CO
BTL RCSB PDB P77674 102.2 Da LogP -0.11 TPSA 17.1 ✓ Ro5 ✓ Clean C[N+](C)(C)CC=O
CQY RCSB PDB O94788 430.5 Da LogP 3.62 TPSA 79.2 ✓ Ro5 ✓ Clean CCOc1ccsc1C(=O)N2CCN(CC2)c3ccc(c(c3)N4CCCC4)[N+…
CU4 RCSB PDB O94788 460.5 Da LogP 4.21 TPSA 104.8 ✓ Ro5 ✓ Clean CS(=O)(=O)c1ccc(cc1)c2c(cn(n2)c3ccc(cc3)C#N)C(=…
DTT RCSB PDB Q9HTJ1 154.3 Da LogP -0.43 TPSA 40.5 ✓ Ro5 ✓ Clean C([C@@H]([C@H](CS)O)O)S
PE4 RCSB PDB Q9HTJ1 354.4 Da LogP 0.11 TPSA 84.8 ✓ Ro5 ✓ Clean CCOCCOCCOCCOCCOCCOCCOCCO
TOE RCSB PDB Q9HTJ1 164.2 Da LogP -0.34 TPSA 47.9 ✓ Ro5 ✓ Clean COCCOCCOCCO
TXE RCSB PDB Q9HTJ1 667.5 Da LogP -2.95 TPSA 317.6 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…

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.