Protein target profile

VK055_1314

zinc-binding dehydrogenase family protein

Genome: KpATCC43816 Gene: AIK79937.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GLL4
Length 397
Pocket druggability 0.982
Direct ligand evidence 0 71 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
Hit
Human identity (%)
31.707 Lower values reduce human off-target concern.
Human E-value
1.67e-07
Gut microbiome similarity
1.3% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
79.241 Higher values support similarity to known essential genes.
DEG E-value
0.0 Smaller values mean stronger essential-gene similarity.

Localization

Localization
Cytoplasmic

Structure confidence

ColabFold pLDDT
92.62 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 0.982
Structure A0A0H3GLL4
Pocket Pocket 1
P2Rank 0.977
Structure A0A0H3GLL4
Pocket Pocket 1
ColabFold model
FPocket 0.415 · Pocket 22
P2Rank 0.985 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 60 / 4744 genomes with a hit
Prevalence 1.3%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MKALTYHGPHHVSVDTMPDPALEAADDIILRVTATAICGSDLHLYRGKIPGTHHGDIFGHEFMGEVVEAGSEVTAVRKGDRVVIPFVIACGDCFFCRLQQYAACESTNSGQGATLNRKGISPPAALFGYSDLYGGIPGGQAEYVRVPKANTGPFKVPDTLPDEKVLFLSDILPTAWQAVKNAEVKPGSSVAIFGAGPVGLLCASCARLNGAEQIFIIDHNDYRLDFAQQRYGAIPINFDHHDDPAQWIIDNTPGHRGVDAVIDAVGFEAKGSLTETVLSTLKIEGSSGKALRQCIAAVRRGGIVSVPGVYAGFIHGFMFGDAFDKGLTFRMGQTHVHAWLPDLLALIEQGLLTPEEIVTHHMPLEEAARGYQIFEKREEACRKVILVPGMQPGKATL

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

2 GO

Gene Ontology (GO)

2
  • GO:0008270 Binding to a zinc ion (Zn).
  • 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.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

16 records
Show feature table
Start End DB Term Name
1 196 SUPERFAMILY SSF50129 GroES-like
1 196 InterPro IPR011032 GroES-like superfamily
1 23 Pfam PF13823 Alcohol dehydrogenase GroES-associated
1 23 InterPro IPR027399 Alcohol dehydrogenase GroES-associated
26 150 Pfam PF08240 Alcohol dehydrogenase GroES-like domain
26 150 InterPro IPR013154 Alcohol dehydrogenase-like, N-terminal
1 388 PANTHER PTHR42813 ZINC-TYPE ALCOHOL DEHYDROGENASE-LIKE
177 338 Gene3D G3DSA:3.40.50.720 -
1 388 CDD cd08283 FDH_like_1
5 375 Gene3D G3DSA:3.90.180.10 -
197 282 Pfam PF00107 Zinc-binding dehydrogenase
197 282 InterPro IPR013149 Alcohol dehydrogenase-like, C-terminal
59 73 ProSitePatterns PS00059 Zinc-containing alcohol dehydrogenases signature.
59 73 InterPro IPR002328 Alcohol dehydrogenase, zinc-type, conserved site
164 349 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains
164 349 InterPro IPR036291 NAD(P)-binding 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 · FPocket

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

Site 1 FPocket #1
0.982
Likely same site as P2Rank 1 0.8 Å 40 shared residues 95% 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
0.977
Likely same site as FPocket 1 0.8 Å 40 shared residues 95% of smaller site
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.149
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.063
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.007
Show in viewer
Surrounding area
Site 5 P2Rank #5
0.004
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_A0A0H3GLL4
AlphaFold DB full sequence Viewing
ColabFold VK055_1314
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.

71 records
Chemistry signal

Structural and bioactivity evidence are both available for this target.

Direct evidence 0 same-protein records
Transferred evidence 21 records from similar proteins
Structural ligands 9 0 loaded crystals
Measured bioactivity 12 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
12H PDB via homolog 216.3 Da · LogP 2.96 · TPSA 57.5 Open detail RCSB PDB
AHE PDB via homolog Detail RCSB PDB
APR PDB via homolog Detail RCSB PDB
CAC PDB via homolog Detail RCSB PDB
DAO 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
12H RCSB PDB P11766 216.3 Da LogP 2.96 TPSA 57.5 ✓ Ro5 ✓ Clean C(CCCCCC(=O)O)CCCCCO
AHE RCSB PDB P11766 337.4 Da LogP -2.45 TPSA 179.1 1 viol. ✓ Clean C(CC(=O)N[C@@H](CSCO)C(=O)NCC(=O)O)[C@@H](C(=O)…
APR RCSB PDB P11766 559.3 Da LogP -3.28 TPSA 291.5 3 viol. ✓ Clean c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)…
CAC RCSB PDB P35630 137.0 Da LogP -0.52 TPSA 40.1 ✓ Ro5 ✓ Clean C[As](=O)(C)[O-]
DAO RCSB PDB P11766 200.3 Da LogP 3.99 TPSA 37.3 ✓ Ro5 ✓ Clean CCCCCCCCCCCC(=O)O
FU2 RCSB PDB Q46UZ9 96.1 Da LogP 1.09 TPSA 30.2 ✓ Ro5 ✓ Clean c1cc(oc1)C=O
ISP RCSB PDB Q46UZ9 140.1 Da LogP 0.50 TPSA 66.8 ✓ Ro5 ✓ Clean CC(C)OP(=O)(O)O
N2P RCSB PDB P11766 102.2 Da LogP 0.07 TPSA 52.0 ✓ Ro5 ✓ Clean C(CCN)CCN
SBT RCSB PDB P14941 74.1 Da LogP 0.78 TPSA 20.2 ✓ Ro5 ✓ Clean CC[C@H](C)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.