Protein target profile

KP13_03564

Gfo/Idh/MocA family oxidoreductase

Genome: KpKP13 Gene: AHE45906.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GPE2
Length 390
Pocket druggability 0.938
Direct ligand evidence 0 59 total records
Functional annotation 0 EC 1 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 (%)
29.703 Lower values reduce human off-target concern.
Human E-value
3.84e-17
Gut microbiome similarity
0.1% 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.

Localization

Localization
Periplasmic

Structure confidence

ColabFold pLDDT
96.8 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 0.938
Structure A0A0H3GPE2
Pocket Pocket 5
P2Rank 0.872
Structure A0A0H3GPE2
Pocket Pocket 1
ColabFold model
FPocket 0.963 · Pocket 2
P2Rank 0.895 · Pocket 1
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 4 / 4744 genomes with a hit
Prevalence 0.1%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MSARLNIGLIGSGFMGQAHADAYRRAAMFYPDLPKRPHLYALADQDQAMAERHAAKLGAEKAYGDWRELVNDPQVDVVDITSPNHLHYTMAMAAIAAGKHVYCEKPLAVNEQQAQEMAQAARRAGVKTMVAFNNIKTPAALLAKQIIARGDIGEPVRFRGTFDQGFYNDPNLPWSWRCSKTLGGSGALGDLGAHTLSVAQFLLGGIREVTASAQTCLRQRPVPQTDAGYASQVAADAEWREVENDDQVQCLVNFDSGAAGVIEASRIAAGRIFGVFWEVSGTEGTLYMDGERFNELQVYRFNDDKHDRGFKTLYAGSQIPAYAGFFGFDFGGGGLGYFDVKVIEVHDLVQGICGEGDCYPNFEFGLQNQRVLSAIEASMASRRWVNVVKD

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 GO

Gene Ontology (GO)

1
  • GO:0000166 Binding to a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

15 records
Show feature table
Start End DB Term Name
3 164 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains
3 164 InterPro IPR036291 NAD(P)-binding domain superfamily
16 20 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
21 390 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 20 Phobius SIGNAL_PEPTIDE Signal peptide region
144 387 Pfam PF02894 Oxidoreductase family, C-terminal alpha/beta domain
144 387 InterPro IPR004104 Gfo/Idh/MocA-like oxidoreductase, C-terminal
1 6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
137 389 Gene3D G3DSA:3.30.360.10 Dihydrodipicolinate Reductase; domain 2
2 136 Gene3D G3DSA:3.40.50.720 -
7 15 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
5 132 Pfam PF01408 Oxidoreductase family, NAD-binding Rossmann fold
5 132 InterPro IPR000683 Gfo/Idh/MocA-like oxidoreductase, N-terminal
138 310 SUPERFAMILY SSF55347 Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
4 311 PANTHER PTHR43818 BCDNA.GH03377

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 #5
0.938
Likely same site as P2Rank 1 3.1 Å 20 shared residues 80% of smaller site
Unusual size
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Surrounding area

Binding pockets · P2Rank

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

Site 1 P2Rank #1
0.872
Likely same site as FPocket 5 3.1 Å 20 shared residues 80% of smaller site
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.177
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.081
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.041
Show in viewer
Surrounding area
Site 5 P2Rank #5
0.036
Likely same site as FPocket 5 5.4 Å 7 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_A0A0H3GPE2
AlphaFold DB full sequence Viewing
ColabFold KP13_03564
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.

59 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 9 records from similar proteins
Structural ligands 9 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
2HA PDB via homolog 90.1 Da · LogP -1.46 · TPSA 57.5 Open detail RCSB PDB
4PW PDB via homolog Detail RCSB PDB
8S0 PDB via homolog Detail RCSB PDB
AC6 PDB via homolog Detail RCSB PDB
CJX 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
2HA RCSB PDB Q9TQS6 90.1 Da LogP -1.46 TPSA 57.5 ✓ Ro5 ✓ Clean C(C(=O)CO)O
4PW RCSB PDB F0M433 162.1 Da LogP -2.18 TPSA 79.2 ✓ Ro5 ✓ Clean C1[C@@H]2[C@H]([C@@H]([C@H]([C@H](O1)O2)O)O)O
8S0 RCSB PDB K7ZP76 178.1 Da LogP -3.01 TPSA 107.2 ✓ Ro5 ✓ Clean C([C@H]1[C@@H]([C@H]([C@@H](C(=O)O1)O)O)O)O
AC6 RCSB PDB Q9TQS6 136.1 Da LogP 1.59 TPSA 37.3 ✓ Ro5 ✓ Clean CC(=O)c1ccc(cc1)O
CJX RCSB PDB Q6L737 485.5 Da LogP -7.26 TPSA 276.8 2 viol. ✓ Clean C1[C@@H]([C@H]([C@@H]([C@H]([C@@H]1N)O[C@@H]2[C…
CK0 RCSB PDB Q6L737 484.5 Da LogP -7.29 TPSA 282.6 2 viol. ✓ Clean C1[C@@H]([C@H]([C@@H]([C@H]([C@@H]1N)O[C@@H]2[C…
ISE RCSB PDB K7ZP76 178.1 Da LogP -3.63 TPSA 118.2 ✓ Ro5 ✓ Clean [C@H]1([C@H](C(=O)[C@H]([C@@H](C1O)O)O)O)O
SIN RCSB PDB Q07982 118.1 Da LogP -0.06 TPSA 74.6 ✓ Ro5 ✓ Clean C(CC(=O)O)C(=O)O
SOE RCSB PDB F0M433 180.2 Da LogP -3.22 TPSA 110.4 ✓ Ro5 ✓ Clean C1[C@@H]([C@H]([C@@H]([C@](O1)(CO)O)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.