KpKP13 Protein target profile

2-hydroxy-6-oxononadienedioate/2-hydroxy-6- oxononatrienedioate hydrolase

Accession: KP13_04610

Gene: AHE44130.1 mhpC 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GPF7
Length 288
Pocket druggability (P2Rank · AlphaFold DB model) 0.941
Direct ligand evidence 0 73 total records
Functional annotation 0 EC 6 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 (%)
29.358 Lower values reduce human off-target concern.
Human E-value
3.17e-07
Gut microbiome similarity
0.6% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Structure confidence

ColabFold pLDDT
96.13 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) 0.941
Structure A0A0H3GPF7
Pocket Pocket 1
Druggability (FPocket) 0.68
Structure A0A0H3GPF7
Pocket Pocket 1
ColabFold model
P2Rank 0.872 · Pocket 1
FPocket 0.707 · Pocket 5
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 27 / 4744 genomes with a hit
Prevalence 0.6%

Sequence

Primary amino-acid sequence viewer.

MSYQPQTEAATSQFLNVDEGGRTLRIHINDCGDGKETVVMLHGSGPGATGWANFSRNIDPLVEAGYRVLLLDCPGWGKSDAIVNSGSRSDLNARILKSVVDQLGIDKVHLLGNSMGGHSAVAFTLSWPERVAKLVLMGGGTGGMSLFTPMPTEGIKLLNALYREPTIENLKKMMSIFVFDTRDLTEALFEARLNNMLSRRDHLDNFVKSLEANPKQFPDFGPRLGEISAPTLIVWGRNDRFVPMDAGLRLLAGIAGSELHIYRDCGHWAQWEHADSFNQLVLNFLARA

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

6 GO

Subcellular localization

Localization
Cytoplasmic

Gene Ontology (GO)

6
  • GO:0019439 OBSOLETE. The chemical reactions and pathways resulting in the breakdown of aromatic compounds, any substance containing an aromatic carbon ring.
  • GO:0016787 Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc.
  • GO:0018771 Catalysis of the reaction: (2Z,4E)-2-hydroxy-6-oxonona-2,4-dienedioate + H2O = (2Z)-2-hydroxypenta-2,4-dienoate + H+ + succinate.
  • GO:0005737 The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0042803 Binding to an identical protein to form a homodimer.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

23 records
Show feature table
Start End DB Term Name
231 245 PRINTS PR00111 Alpha/beta hydrolase fold signature
231 245 InterPro IPR000073 Alpha/beta hydrolase fold-1
65 80 PRINTS PR00111 Alpha/beta hydrolase fold signature
65 80 InterPro IPR000073 Alpha/beta hydrolase fold-1
124 137 PRINTS PR00111 Alpha/beta hydrolase fold signature
124 137 InterPro IPR000073 Alpha/beta hydrolase fold-1
110 123 PRINTS PR00111 Alpha/beta hydrolase fold signature
110 123 InterPro IPR000073 Alpha/beta hydrolase fold-1
5 287 SUPERFAMILY SSF53474 alpha/beta-Hydrolases
5 287 InterPro IPR029058 Alpha/Beta hydrolase fold
65 80 PRINTS PR00412 Epoxide hydrolase signature
65 80 InterPro IPR000639 Epoxide hydrolase-like
262 284 PRINTS PR00412 Epoxide hydrolase signature
262 284 InterPro IPR000639 Epoxide hydrolase-like
124 137 PRINTS PR00412 Epoxide hydrolase signature
124 137 InterPro IPR000639 Epoxide hydrolase-like
2 287 Hamap MF_01654 2-hydroxy-6-oxononadienedioate/2-hydroxy-6-oxononatrienedioate hydrolase [mhpC].
2 287 InterPro IPR023791 2-hydroxy-6-oxononadienedioate/2-hydroxy-6-oxononatrienedioate hydrolase
38 278 Pfam PF12697 Alpha/beta hydrolase family
38 278 InterPro IPR000073 Alpha/beta hydrolase fold-1
1 287 Gene3D G3DSA:3.40.50.1820 alpha/beta hydrolase
1 287 InterPro IPR029058 Alpha/Beta hydrolase fold
9 287 PANTHER PTHR43689 HYDROLASE

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
0.941
Show in viewer
Surrounding area
Pocket 2 P2Rank #2
0.225
Likely same site as FPocket 1 0.8 Å 14 shared residues 100% of smaller site
Show in viewer
Surrounding area

Binding pockets · FPocket

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

Pocket 1 FPocket #1
0.68 Unusual size
Likely same site as P2Rank 2 0.8 Å 14 shared residues 100% of smaller site
Show in viewer
Surrounding area
Residue sets
UniProt: Active site:267-267 Proton acceptor
UniProt: Site:114-114 Transition state stabilizer
UniProt: Site:192-192 Catalytic role in ketonization of the dienol substrate (substrate destabilization)
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_A0A0H3GPF7
AlphaFold DB full sequence Viewing
ColabFold KP13_04610
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.

73 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 23 records from similar proteins
Structural ligands 23 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
6OR PDB via homolog 243.1 Da · LogP 1.95 · TPSA 74.6 Open detail RCSB PDB
6OT PDB via homolog Detail RCSB PDB
ALQ PDB via homolog Detail RCSB PDB
BEZ PDB via homolog Detail RCSB PDB
BUA 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
6OR RCSB PDB P9WNH5 243.1 Da LogP 1.95 TPSA 74.6 ✓ Ro5 ✓ Clean c1c(cc(c(c1Cl)O)Cl)S(=O)(=O)O
6OT RCSB PDB P9WNH5 226.1 Da LogP 1.64 TPSA 60.2 ✓ Ro5 ✓ Clean c1c(cc(cc1Cl)Cl)S(=O)(=O)N
ALQ RCSB PDB P96965 88.1 Da LogP 0.73 TPSA 37.3 ✓ Ro5 ✓ Clean CC(C)C(=O)O
BEZ RCSB PDB P96965 122.1 Da LogP 1.38 TPSA 37.3 ✓ Ro5 ✓ Clean c1ccc(cc1)C(=O)O
BUA RCSB PDB P96965 88.1 Da LogP 0.87 TPSA 37.3 ✓ Ro5 ✓ Clean CCCC(=O)O
C0E RCSB PDB P47229 254.2 Da LogP 2.39 TPSA 74.6 ✓ Ro5 ✓ Clean c1cc(ccc1C(=O)C=CC(=C(C(=O)O)O)F)F
C1E RCSB PDB P47229 252.7 Da LogP 2.52 TPSA 74.6 ✓ Ro5 ✓ Clean c1ccc(cc1)C(=O)\C=C\C(=C(/C(=O)O)\O)\Cl
EEE RCSB PDB P22862 88.1 Da LogP 0.57 TPSA 26.3 ✓ Ro5 ✓ Clean CCOC(=O)C
FGZ RCSB PDB P9WNH5 207.0 Da LogP 2.40 TPSA 57.5 ✓ Ro5 ✓ Clean c1c(cc(c(c1Cl)O)Cl)C(=O)O
HPK RCSB PDB P9WNH5 217.2 Da LogP 0.13 TPSA 74.3 ✓ Ro5 ✓ Clean c1ccc(cc1)C(=O)C\C=C\C(=O)C(=O)[O-]
HPZ RCSB PDB P47229 218.2 Da LogP 1.95 TPSA 74.6 ✓ Ro5 ✓ Clean c1ccc(cc1)C(=O)\C=C\C=C(/C(=O)O)\O
IVA RCSB PDB P96965 102.1 Da LogP 1.12 TPSA 37.3 ✓ Ro5 ✓ Clean CC(C)CC(=O)O
J6Z RCSB PDB P22862 137.2 Da LogP 0.33 TPSA 57.2 ✓ Ro5 ✓ Clean CC[C@@H](C)S(=O)(=O)[O-]
KEK RCSB PDB P9WNH5 293.7 Da LogP 1.35 TPSA 74.3 ✓ Ro5 ✓ Clean C[C@H](\C=C\C(=O)C(=O)[O-])C(=O)CCc1ccccc1Cl
KEM RCSB PDB P9WNH5 349.4 Da LogP 0.60 TPSA 111.6 ✓ Ro5 ✓ Clean C[C@H](\C=C\C(=O)C(=O)[O-])C(=O)CC[C@@H]1[C@H]2…
LEA RCSB PDB P96965 102.1 Da LogP 1.26 TPSA 37.3 ✓ Ro5 ✓ Clean CCCCC(=O)O
MLA RCSB PDB P47229 104.1 Da LogP -0.45 TPSA 74.6 ✓ Ro5 ✓ Clean C(C(=O)O)C(=O)O
MLI RCSB PDB P47229 102.0 Da LogP -3.12 TPSA 80.3 ✓ Ro5 ✓ Clean C(C(=O)[O-])C(=O)[O-]
PCS RCSB PDB P96084 197.7 Da LogP 1.36 TPSA 43.1 ✓ Ro5 ✓ Clean c1ccc(cc1)C[C@@H](C(=O)CCl)N
PEO RCSB PDB P22862 34.0 Da LogP 0.02 TPSA 40.5 ✓ Ro5 ✓ Clean OO
PHK RCSB PDB P96084 199.7 Da LogP 1.16 TPSA 46.2 ✓ Ro5 ✓ Clean c1ccc(cc1)C[C@@H]([C@H](CCl)O)N
PPI RCSB PDB P96965 74.1 Da LogP 0.48 TPSA 37.3 ✓ Ro5 ✓ Clean CCC(=O)O
SMB RCSB PDB P96965 102.1 Da LogP 1.12 TPSA 37.3 ✓ Ro5 ✓ Clean CC[C@H](C)C(=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.

Cross-references

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