Protein profile

VK055_2312

GABA permease

Genome: KpATCC43816

Gene: gabP AIK80916.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GJW2
Amino acids 466
Annotations 6
Features 47
PDB binders 3
Druggability 0.732

Overview

Basic information about this protein and its source genome.

Accession
VK055_2312
Gene
gabP AIK80916.1
Status
annotated
Amino acids
466
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
24.515
Human E-value
1.71e-06
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
37.327
Localization
CytoplasmicMembrane
ColabFold pLDDT
85.67

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 0.732
Structure A0A0H3GJW2
Pocket Pocket 20
P2Rank 0.755
Structure A0A0H3GJW2
Pocket Pocket 1
ColabFold model
FPocket 0.927 · Pocket 1
P2Rank 0.365 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 60 / 4744 genomes with a hit
Normalized 0.013

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

6 GO

Gene Ontology (GO)

6
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • 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:0015185 Enables the transfer of gamma-aminobutyric acid from one side of a membrane to the other. Gamma-aminobutyric acid is 4-aminobutyrate (GABA).
  • GO:0015812 The directed movement of gamma-aminobutyric acid (GABA, 4-aminobutyrate), an amino acid which acts as a neurotransmitter in some organisms, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
  • GO:0055085 The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other.
  • 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 Features

Domain/signature hits from InterPro and related databases.

47 records
Show feature table
Start End DB Term Name
97 120 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
152 174 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
401 423 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
245 267 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
241 264 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
181 199 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
46 66 Phobius TRANSMEMBRANE 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.
335 357 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 452 NCBIfam TIGR01773 GABA permease
1 452 InterPro IPR011265 GABA permease
450 466 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
355 359 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
429 449 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
424 428 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
46 65 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
202 224 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
43 73 ProSitePatterns PS00218 Amino acid permeases signature.
43 73 InterPro IPR004840 Amino acid permease, conserved site
67 96 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
284 308 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
9 456 FunFam G3DSA:1.20.1740.10:FF:000001 Amino acid permease
157 180 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
381 400 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
309 334 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
21 40 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
146 156 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
221 240 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
18 455 Pfam PF00324 Amino acid permease
18 455 InterPro IPR004841 Amino acid permease/ SLC12A domain
265 283 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
427 449 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
335 354 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
360 380 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
41 45 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
362 381 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
5 453 PANTHER PTHR43495 GABA PERMEASE
1 20 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
86 108 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
200 220 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
123 145 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
13 456 Gene3D G3DSA:1.20.1740.10 Amino acid/polyamine transporter I
401 423 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
19 41 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 459 PIRSF PIRSF006060 AA_transporter
126 145 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
121 125 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.

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_A0A0H3GJW2
AlphaFold full sequence Viewing
ColabFold VK055_2312
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
20 0.732
17 0.501

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 13.21 0.678
2 6.61 0.335
3 5.02 0.228
4 4.53 0.194
5 3.5 0.128

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.