Protein profile

KP13_04420

Lysine-specific permease

Genome: KpKP13

Gene: AHE43569.1 lysP Structure source: AlphaFold + ColabFold UniProt A0A0H3GW42
Amino acids 489
Annotations 5
Features 45
PDB binders 3
Druggability 0.921

Overview

Basic information about this protein and its source genome.

Accession
KP13_04420
Gene
AHE43569.1 lysP
Status
annotated
Amino acids
489
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
24.725
Human E-value
4.34e-06
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
48.319
DEG E-value
5.79e-166
Localization
CytoplasmicMembrane
ColabFold pLDDT
86.7

Selected Druggability evidence

AlphaFold / UniProt model

Selected Druggability is the FPocket score chosen for ranking using the curated structure priority. The 3D viewer may show a different loaded structure, so its visible pockets can differ.

FPocket 0.921
Structure A0A0H3GW42
Pocket Pocket 1
P2Rank 0.539
Structure A0A0H3GW42
Pocket Pocket 1
ColabFold model
FPocket 0.472 · Pocket 5
P2Rank 0.577 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 411 / 4744 genomes with a hit
Normalized 0.087

Sequence

Primary amino-acid sequence viewer.

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:0055085 The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other.
  • GO:0006865 The directed movement of amino acids, organic acids containing one or more amino substituents, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
  • 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:0015171 Enables the transfer of amino acids from one side of a membrane to the other. Amino acids are organic molecules that contain an amino group and a carboxyl group.

Sequence Features

Domain/signature hits from InterPro and related databases.

45 records
Show feature table
Start End DB Term Name
245 267 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
130 152 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
343 365 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
21 43 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
436 446 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
53 75 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
202 224 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 486 PIRSF PIRSF006060 AA_transporter
468 489 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
245 267 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
395 414 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
196 218 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
413 435 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
445 467 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
103 125 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
159 181 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
21 43 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
370 392 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
287 309 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
12 478 FunFam G3DSA:1.20.1740.10:FF:000001 Amino acid permease
183 201 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
313 347 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
268 286 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
44 48 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
13 474 Gene3D G3DSA:1.20.1740.10 Amino acid/polyamine transporter I
415 435 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
21 475 Pfam PF00324 Amino acid permease
21 475 InterPro IPR004841 Amino acid permease/ SLC12A domain
447 467 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
46 77 ProSitePatterns PS00218 Amino acid permeases signature.
46 77 InterPro IPR004840 Amino acid permease, conserved site
371 394 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
103 125 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
287 312 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
126 130 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
161 182 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
67 102 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
49 66 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
7 484 PANTHER PTHR43341 AMINO ACID PERMEASE
366 370 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
150 160 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
225 244 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
131 149 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
348 365 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; predicted models typically cover the full protein.

3D visualization script Full viewer

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Structural evidence

0 + 2

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
AlphaFold AF_A0A0H3GW42
AlphaFold full sequence Viewing
ColabFold KP13_04420
ColabFold full sequence Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

Pockets (FPOCKET)

Showing top-ranked FPocket candidates by druggability. Druggability is color-coded: high (0.7 or higher), medium (0.4 to 0.69), low (below 0.4).

FPOCKET Sticks Spheres Surfaces Druggability Labels Zoom Positions
1 0.921
3 0.656
7 0.453

Pockets (P2RANK)

Showing top-ranked P2Rank candidates by probability. Probability is color-coded per P2Rank calibration: high (≥ 0.5), medium (0.2 – 0.49), low (< 0.2).

P2RANK Sticks Spheres Surfaces Score Probability Labels Zoom Positions
1 10.95 0.587
2 5.28 0.247
3 4.66 0.203
4 2.41 0.065
5 2.4 0.064

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.

67 records

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
CLR Q5L1G5 386.7 Da LogP 7.39 TPSA 20.2 1 viol. ✓ Clean CC(C)CCC[C@@H](C)[C@H]1CC[C@@H]2[C@@]1(CC[C@H]3…
D10 Q58026 142.3 Da LogP 4.15 TPSA 0.0 ✓ Ro5 ✓ Clean CCCCCCCCCC
OLC Q5L1G5 356.5 Da LogP 4.92 TPSA 66.8 ✓ Ro5 ✓ Clean CCCCCCCC\C=C/CCCCCCCC(=O)OC[C@@H](CO)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.