Protein target profile

KP13_00940

Inner membrane protein

Genome: KpKP13 Gene: AHE43533.1 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3H0X3
Length 572
Pocket druggability 0.992
Direct ligand evidence 0 52 total records
Functional annotation 0 EC 2 GO
Target summary

Strong target candidate with converging metabolic, structural and chemical evidence.

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
2.2% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

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

Localization

Localization
CytoplasmicMembrane

Structure confidence

ColabFold pLDDT
91.37 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 0.992
Structure A0A0H3H0X3
Pocket Pocket 12
P2Rank 0.849
Structure A0A0H3H0X3
Pocket Pocket 1
ColabFold model
FPocket 0.992 · Pocket 11
P2Rank 0.89 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 104 / 4744 genomes with a hit
Prevalence 2.2%

Cross-references

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

Sequence

Primary amino-acid sequence viewer.

MVSWGHWFALFNMLLAMVLGSRYLFVADWPTTLAGRLFSYVSLVGHFSFLVFTSYVLILFPLTFIVVSQRLMRFLSVILATAGMTLLLIDSEVFTRFHLHLNPVVWELVINPDQNEMARDWQLMFISVPVIFLIEMLFATWSWQKLRSLTRRRHYARPVAWFFFLSFVSSHLVYIWADANFYRPITMQRANLPLSYPMTARRFLEKHGLLDAQDYQRRLVEQGAPEAVSVQYPLSNLRYRDLGAGYNVLLITVDNLNYSRFEKTMPALAAFAKENVNFTQHMSSGNTADSGLFGLFYGISPGYMDGVLSARIPAALITALNQQGYQLGLFSSDGFSSPLYRQALLSDFSLPSAKTQSDEQTANQWIGWLDRYAQDENRWFSWISLNGTTLDDTQQQGFVRRYSKAAGDVDAQIDRVLTALREAGKLDNTVVIITGGHGKPLNAKHDAFDWSREQLQVPLVIHWPGTPAQEIATLTDNKDVMTTLMQRLLHVSTPANEYSQGEDLFSAARRRNWVTAANGDTLAITTPTITVVLNHNGTYTTWSRDGEKIKDQKPQLSLLLQVLTDEKRFIAN

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

2 GO

Gene Ontology (GO)

2
  • GO:0008484 Catalysis of the reaction: RSO-R' + H2O = RSOOH + R'H. This reaction is the hydrolysis of a sulfuric ester bond, an ester formed from sulfuric acid, O=SO(OH)2.
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

29 records
Show feature table
Start End DB Term Name
90 120 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
178 572 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 238 Pfam PF11893 Domain of unknown function (DUF3413)
1 238 InterPro IPR024588 Inner membrane protein YejM, N-terminal
26 36 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
144 154 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
155 177 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
75 94 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 20 SignalP_EUK SignalP-TM SignalP-TM
37 59 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
71 89 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
239 507 Gene3D G3DSA:3.40.720.10 Alkaline Phosphatase, subunit A
239 507 InterPro IPR017850 Alkaline-phosphatase-like, core domain superfamily
7 25 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
247 486 Pfam PF00884 Sulfatase
247 486 InterPro IPR000917 Sulfatase, N-terminal
60 70 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
121 143 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
46 68 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 572 NCBIfam NF038282 LPS biosynthesis-modulating metalloenzyme YejM
1 6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
245 545 SUPERFAMILY SSF53649 Alkaline phosphatase-like
245 545 InterPro IPR017850 Alkaline-phosphatase-like, core domain superfamily
7 26 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 572 PIRSF PIRSF004950 Mmb_sulf_HI0842
1 572 InterPro IPR012159 Inner membrane protein YejM
155 177 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
248 513 PANTHER PTHR43108 N-ACETYLGLUCOSAMINE-6-SULFATASE FAMILY MEMBER
121 143 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.

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 #12
0.992
Likely same site as P2Rank 3 2.2 Å 19 shared residues 100% of smaller site
Unusual size
Show in viewer
Surrounding area
Site 2 FPocket #17
0.972
Likely same site as P2Rank 2 0.4 Å 15 shared residues 100% of smaller site
Unusual size
Show in viewer
Surrounding area
Site 3 FPocket #3
0.296
Show in viewer
Surrounding area
Site 4 FPocket #33
0.207
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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
0.849
Show in viewer
Surrounding area
Site 2 P2Rank #2
0.755
Likely same site as FPocket 17 0.4 Å 15 shared residues 100% of smaller site
Show in viewer
Surrounding area
Site 3 P2Rank #3
0.673
Likely same site as FPocket 12 2.2 Å 19 shared residues 100% of smaller site
Show in viewer
Surrounding area
Site 4 P2Rank #4
0.307
Show in viewer
Surrounding area
Site 5 P2Rank #5
0.283
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_A0A0H3H0X3
AlphaFold DB full sequence Viewing
ColabFold KP13_00940
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.

52 records
Chemistry signal

Structural ligand evidence is available for this target.

Direct evidence 0 same-protein records
Transferred evidence 2 records from similar proteins
Structural ligands 2 0 loaded crystals
Measured bioactivity 0 direct and transferred ChEMBL records
Proposed compounds 50 similarity-based ZINC candidates
Best available ligand signal
ETA PDB via homolog 61.1 Da · LogP -1.06 · TPSA 46.2 Open detail RCSB PDB
PSE PDB via homolog Detail RCSB PDB
ZINC12501520 ZINC proposed compound · Tanimoto 1.000 Detail ZINC
ZINC3874716 ZINC proposed compound · Tanimoto 1.000 Detail ZINC
ZINC4283769 ZINC proposed compound · Tanimoto 1.000 Detail ZINC

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
ETA RCSB PDB P40709 61.1 Da LogP -1.06 TPSA 46.2 ✓ Ro5 ✓ Clean C(CO)N
PSE RCSB PDB P40709 171.1 Da LogP -1.58 TPSA 113.0 ✓ Ro5 ✓ Clean C([C@H](COP(=O)(O)O)N)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.