Protein target profile

KP13_00046

Inner membrane protein oxaA

Genome: KpKP13 Gene: AHE47157.1 oxaA 3D evidence: AlphaFold DB model + ColabFold model UniProt A0A0H3H4V7
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Length 548
Pocket druggability 0.913
Functional annotation 0 EC 5 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.

Main supporting evidence

Independent pocket support: FPocket + P2Rank Both predictors report a high-scoring binding site (FPocket 0.91, P2Rank 0.94). Use the 3D pocket comparison to verify whether they identify the same site. Core gene across strains Marked as conserved by both pan-genome tools: Roary and CoreCruncher. Strong predicted binding pocket FPocket selected-pocket score 0.91. This is a computational pocket signal, not binding validation. Second pocket predictor agrees P2Rank predicted binding-site probability 0.94. Review the complete evidence below

Risks to review

Low human similarity A human hit was flagged, but identity is only 27.536% - a weak match, lower risk than a close homolog. This target also has a predicted binding pocket (FPocket 0.91) — check the ligand evidence before deprioritizing on off-target risk alone. Microbiome similarity 147 of 4744 screened genomes (3.1%) have a significant similarity hit. This target also has a predicted binding pocket (FPocket 0.91) — check the ligand evidence before deprioritizing on off-target risk alone.

Evidence gaps

No metabolic context No SBML/network-derived reaction evidence is loaded for this protein. No ligand evidence No experimental PDB ligands, measured ChEMBL bioactivity, or proposed ZINC compound records are available.
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 (%)
27.536 Lower values reduce human off-target concern.
Human E-value
2.25e-12
Gut microbiome similarity
3.1% of screened genomes Lower prevalence suggests narrower overlap with the screened gut microbiome.

Essentiality

Essential (DEG)
Y
DEG identity (%)
87.978 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
86.7 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 0.913
Structure A0A0H3H4V7
Pocket Pocket 11
P2Rank 0.937
Structure A0A0H3H4V7
Pocket Pocket 1
ColabFold model
FPocket 0.821 · Pocket 35
P2Rank 0.86 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 147 / 4744 genomes with a hit
Prevalence 3.1%

Cross-references

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

Sequence

UniProt A0A0H3H4V7

Sequence

Primary amino-acid sequence viewer.

MDSQRNLLIIALLFVSFMIWQAWEQDKNPQPQQQTTQTTTTAAGSAADQGVPASGQGKLITVKTDVLELTINTNGGDIEQALLLAYPKTLKSTEPFQLLETTPQFVYQAQSGLTGRDGPDNPANGPRPLYNVDKEAFVLADGQDELVIPLTYTDKAGNVFTKTFTLKRGGYAVNVGYSVQNASEKPLEVSTFGQLKQTAALPTSRDTQTGGLSTMHTFRGAAFSTADSKYEKYKFDTILDNENLNVSTKNGWVAMLQQYFTTAWVPRNNGTNNFYTANLGNGVVAIGYKSQPVLVQPGQTDKLQSTLWVGPAIQDKMAAVAPHLDLTVDYGWLWFISQPLFKLLKFIHSFLGNWGFSIIVITFIVRGIMYPLTKAQYTSMAKMRMLQPKIQAMRERLGDDKQRQSQEMMALYKAEKVNPLGGCFPLIIQMPIFLALYYMLSASVELRHAPFILWIHDLSAQDPYYILPIIMGATMFFIQKMSPTTVTDPMQQKIMTFMPVIFTVFFLWFPSGLVVYYIVSNLVTIIQQQLIYRGLEKRGLHSREKKKS

Functional annotations

Enzyme classification and Gene Ontology terms linked to this protein.

5 GO

Gene Ontology (GO)

5
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0032977 Binds transmembrane domain-containing proteins and mediates their integration into a membrane.
  • GO:0005886 The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
  • GO:0051205 The process that results in the incorporation of a protein into a biological membrane. Incorporation in this context means having some part or covalently attached group that is inserted into the the hydrophobic region of one or both bilayers.
  • GO:0015031 The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.

Sequence domains and features

Domain and signature matches imported from InterPro and related databases.

63 records
Show feature table
Start End DB Term Name
374 416 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
60 343 Pfam PF14849 YidC periplasmic domain
60 343 InterPro IPR028053 Membrane insertase YidC, N-terminal
494 519 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 24 SignalP_EUK SignalP-noTM SignalP-noTM
28 50 MobiDBLite mobidb-lite consensus disorder prediction
354 533 Pfam PF02096 60Kd inner membrane protein
354 533 InterPro IPR028055 Membrane insertase YidC/Oxa/ALB, C-terminal
1 6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
441 463 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
7 24 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
324 344 PRINTS PR00701 60kDa inner membrane protein signature
324 344 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
415 438 PRINTS PR00701 60kDa inner membrane protein signature
415 438 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
157 177 PRINTS PR00701 60kDa inner membrane protein signature
157 177 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
65 86 PRINTS PR00701 60kDa inner membrane protein signature
65 86 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
2 23 PRINTS PR00701 60kDa inner membrane protein signature
2 23 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
217 235 PRINTS PR00701 60kDa inner membrane protein signature
217 235 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
462 484 PRINTS PR00701 60kDa inner membrane protein signature
462 484 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
499 522 PRINTS PR00701 60kDa inner membrane protein signature
499 522 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
251 266 PRINTS PR00701 60kDa inner membrane protein signature
251 266 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
4 535 Hamap MF_01810 Membrane protein insertase YidC [yidC].
4 535 InterPro IPR019998 Membrane insertase YidC
354 373 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 24 Phobius SIGNAL_PEPTIDE Signal peptide region
3 352 NCBIfam TIGR03593 membrane protein insertase, YidC/Oxa1 family, N-terminal domain
3 352 InterPro IPR028053 Membrane insertase YidC, N-terminal
520 548 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
18 24 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
483 493 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
55 335 FunFam G3DSA:2.70.98.90:FF:000001 Membrane protein insertase YidC
464 482 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
355 533 CDD cd20070 5TM_YidC_Alb3
355 533 InterPro IPR047196 Membrane insertase YidC/ALB, C-terminal
339 355 PRINTS PR01900 YidC translocation/secretion protein signature
339 355 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
468 483 PRINTS PR01900 YidC translocation/secretion protein signature
468 483 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
488 512 PRINTS PR01900 YidC translocation/secretion protein signature
488 512 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
28 47 MobiDBLite mobidb-lite consensus disorder prediction
313 538 PANTHER PTHR12428 OXA1
313 538 InterPro IPR001708 Membrane insertase YidC/ALB3/OXA1/COX18
55 335 Gene3D G3DSA:2.70.98.90 -
55 335 InterPro IPR038221 YidC, periplasmic domain superfamily
58 330 CDD cd19961 EcYidC-like_peri
58 330 InterPro IPR028053 Membrane insertase YidC, N-terminal
417 439 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
25 353 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
497 519 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
350 372 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
353 533 NCBIfam TIGR03592 membrane protein insertase YidC
353 533 InterPro IPR028055 Membrane insertase YidC/Oxa/ALB, C-terminal
7 17 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
417 440 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 #11
0.913
Likely same site as P2Rank 1 2.5 Å 31 shared residues 82% 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
0.937
Likely same site as FPocket 11 2.5 Å 31 shared residues 82% of smaller site
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Surrounding area
Site 2 P2Rank #2
0.262
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Surrounding area
Site 3 P2Rank #3
0.242
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Surrounding area
Site 4 P2Rank #4
0.13
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Surrounding area
Site 5 P2Rank #5
0.02
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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_A0A0H3H4V7
AlphaFold DB — — full sequence — Viewing
ColabFold KP13_00046
ColabFold — — full sequence — Loaded