Protein target profile

KP13_03365

putative biotin sulfoxide reductase

Genome: KpKP13 Gene: AHE45744.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3GLB2
Length 760
Pocket druggability 0.997
Direct ligand evidence 0 58 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
No hit
Gut microbiome similarity
0.3% 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
Unknown

Structure confidence

ColabFold pLDDT
96.56 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 0.997
Structure A0A0H3GLB2
Pocket Pocket 1
P2Rank 0.995
Structure A0A0H3GLB2
Pocket Pocket 1
ColabFold model
FPocket 0.998 · Pocket 1
P2Rank 0.988 · Pocket 1
Core conservation Accessory gene
Roary accessory
CoreCruncher accessory
Gut microbiome 13 / 4744 genomes with a hit
Prevalence 0.3%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MHWGTWQVESREGEIVAVKPVPWDKNPSRIGQSLPDAVTSQTRIRRPAVRAGYLQHGPASREGRGKEPFVEVSWEVALDLLARELRSVKARCGNEAIYGGSYGWASAGRFHHAQSQLHRFLKGFGGYTASTNTYSSAAGERILPHILGPLSPLHRQHTHFSELARECQLFVAIGGLPLRNAQVNGGGANDHMLQYWLDKMQANGTRFINISPVRNDLSAVPEAEWLAIRPGTDTALLLALSYVLIAESLYDQAFVASHTVGFAPYRAYLLGEHDGVAKTPAWAAAITGLDAQRIADLAREMARHRTMVNISWSIQRARQGEQAYWATVALTALLGQIGTPGGGLGFGYACTNLAGAVRKAFSGPRLPAGENAVDSVIPVARLSDMLLHPGETYEFDGQQRRYPDIRLVYWAGGNAFHHHQDINRLCEAWRRPETVVVHEQYWTAQAKFSDIVLPATTSLEREDIGSGGHDGFMIAMSAQIPPVGEARDDYAIFCDLAGRLGFGEAFSEGRDAGQWLRHLYEESRPRAQEEGIALHSFDDFWQQGVLEYSAPERPQIFLADFRADPQRYPLSTPSGKIELFSATVAGFGYRECPGHPWWDEQEAARQRQEAARWPLHLLSSQPRARLHSQYDHGSVSRATKIQGREPLWMHPSDAQARDIREGSVVKVYNDRGAILAGVHLSEQILPGVVQMSTGAWYDPLDPKEERSLDKHGNPNVLTEDRGSSRLGQGCSAQSCWVEIAPWREELPPITAFDPPKFIEV

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

6 GO

Gene Ontology (GO)

6
  • 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:0043546 Binding to a molybdopterin cofactor (Moco), essential for the catalytic activity of some enzymes, e.g. sulfite oxidase, xanthine dehydrogenase, and aldehyde oxidase. The cofactor consists of a mononuclear molybdenum (Mo-molybdopterin) or tungsten ion (W-molybdopterin) coordinated by one or two molybdopterin ligands.
  • GO:0030288 The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.
  • GO:0009055 A molecular function representing the directed movement of electrons from one molecular entity to another, typically mediated by electron carriers or acceptors, resulting in the transfer of energy and/or the reduction-oxidation (redox) transformation of chemical species. This activity is fundamental to various biological processes, including cellular respiration and photosynthesis, as well as numerous enzymatic reactions involved in metabolic pathways.
  • GO:0030151 Binding to a molybdenum ion (Mo).
  • GO:0009061 The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which uses compounds other than oxygen (e.g. nitrate, sulfate) as the terminal 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
589 752 Gene3D G3DSA:2.40.40.20 -
610 759 SUPERFAMILY SSF50692 ADC-like
610 759 InterPro IPR009010 Aspartate decarboxylase-like domain superfamily
700 716 MobiDBLite mobidb-lite consensus disorder prediction
613 740 CDD cd02793 MopB_CT_DMSOR-BSOR-TMAOR
613 740 InterPro IPR041954 Trimethylamine-N-oxide reductase-like, molybdopterin-binding domain
2 741 PANTHER PTHR43742 TRIMETHYLAMINE-N-OXIDE REDUCTASE
43 498 Pfam PF00384 Molybdopterin oxidoreductase
43 498 InterPro IPR006656 Molybdopterin oxidoreductase
700 724 MobiDBLite mobidb-lite consensus disorder prediction
2 38 Pfam PF18364 Molybdopterin oxidoreductase N-terminal domain
2 38 InterPro IPR041460 Molybdopterin oxidoreductase, N-terminal
615 735 Pfam PF01568 Molydopterin dinucleotide binding domain
615 735 InterPro IPR006657 Molybdopterin dinucleotide-binding domain
135 581 Gene3D G3DSA:3.40.228.10 Dimethylsulfoxide Reductase, domain 2
2 616 SUPERFAMILY SSF53706 Formate dehydrogenase/DMSO reductase, domains 1-3
37 548 Gene3D G3DSA:3.90.55.10 Dimethylsulfoxide Reductase, domain 3
43 507 Gene3D G3DSA:3.40.50.740 -

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.

Download VMD script Full viewer

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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
0.997
Unusual size
Show in viewer
Surrounding area
Site 2 FPocket #3
0.887
Show in viewer
Surrounding area
Site 3 FPocket #39
0.838
Likely same site as P2Rank 2 2.2 Å 18 shared residues 100% of smaller site
Unusual size
Show in viewer
Surrounding area
Site 4 FPocket #2
0.457
Show in viewer
Surrounding area

Binding pockets · P2Rank

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

Site 1 P2Rank #1
0.995
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.304
Likely same site as FPocket 39 2.2 Å 18 shared residues 100% of smaller site
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.243
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.174
Show in viewer
Surrounding area
Site 5 P2Rank #5
0.14
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_A0A0H3GLB2
AlphaFold DB full sequence Viewing
ColabFold KP13_03365
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.

58 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 13 records from similar proteins
Structural ligands 13 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 45 similarity-based ZINC candidates
Best available ligand signal
2MD PDB via homolog 742.6 Da · LogP -2.53 · TPSA 346.6 Open detail RCSB PDB
2MO PDB via homolog Detail RCSB PDB
4MO PDB via homolog Detail RCSB PDB
6MO PDB via homolog Detail RCSB PDB
6WO 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
2MD RCSB PDB O87948 742.6 Da LogP -2.53 TPSA 346.6 3 viol. ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=…
2MO RCSB PDB Q52675 127.9 Da LogP -0.24 TPSA 34.1 ✓ Ro5 ✓ Clean O=[Mo]=O
4MO RCSB PDB Q52675 95.9 Da LogP -0.00 TPSA 0.0 ✓ Ro5 ✓ Clean [Mo+4]
6MO RCSB PDB Q52675 95.9 Da LogP -0.00 TPSA 0.0 ✓ Ro5 ✓ Clean [Mo+6]
6WO RCSB PDB Q52675 199.8 Da LogP -0.12 TPSA 17.1 ✓ Ro5 ✓ Clean O=[W+4]
BTT RCSB PDB P80563 142.1 Da LogP 0.51 TPSA 80.9 ✓ Ro5 Alert c1c(c(cc(c1O)O)O)O
MGD RCSB PDB P80563 740.6 Da LogP -2.06 TPSA 346.6 3 viol. ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=…
NO2 RCSB PDB P07658 46.0 Da LogP 0.25 TPSA 52.5 ✓ Ro5 ✓ Clean N(=O)[O-]
O RCSB PDB Q52675 18.0 Da LogP -0.82 TPSA 31.5 ✓ Ro5 ✓ Clean O
PGD RCSB PDB Q52675 738.6 Da LogP -2.97 TPSA 343.0 3 viol. ✓ Clean c1nc2c(n1[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=…
PYG RCSB PDB P80563 126.1 Da LogP 0.80 TPSA 60.7 ✓ Ro5 Alert c1cc(c(c(c1)O)O)O
SO2 RCSB PDB Q52675 64.1 Da LogP -0.67 TPSA 34.1 ✓ Ro5 ✓ Clean O=S=O
W RCSB PDB Q71EW5 183.8 Da LogP -0.00 TPSA 0.0 ✓ Ro5 ✓ Clean [W+6]

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.