Protein profile

KP13_04269

Multidrug efflux pump KdeA

Genome: KpKP13

Gene: AHE45499.1 kdeA Structure source: AlphaFold + ColabFold UniProt A0A0H3GQD8
Amino acids 410
Annotations 7
Features 48
PDB binders 4
Druggability 0.969

Overview

Basic information about this protein and its source genome.

Accession
KP13_04269
Gene
AHE45499.1 kdeA
Status
annotated
Amino acids
410
Structure source
AlphaFold + ColabFold

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
0.0
Localization
CytoplasmicMembrane
ColabFold pLDDT
92.63

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 0.969
Structure A0A0H3GQD8
Pocket Pocket 23
P2Rank 0.968
Structure A0A0H3GQD8
Pocket Pocket 1
ColabFold model
FPocket 0.346 · Pocket 26
P2Rank 0.955 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 91 / 4744 genomes with a hit
Normalized 0.019

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

7 GO

Gene Ontology (GO)

7
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0022857 Enables the transfer of a substance, usually a specific substance or a group of related substances, from one side of a membrane to the other.
  • 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.
  • GO:0015385 Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: Na+(out) + H+(in) = Na+(in) + H+(out).
  • GO:0046677 Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
  • GO:1990961 A process that reduces or removes the toxicity of a xenobiotic by exporting it outside the cell.

Sequence Features

Domain/signature hits from InterPro and related databases.

48 records
Show feature table
Start End DB Term Name
170 188 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
111 130 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
379 399 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
53 75 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
165 169 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
347 367 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
348 365 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
82 104 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
137 156 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
336 346 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
220 242 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
106 110 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
260 280 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
400 410 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
27 362 Pfam PF07690 Major Facilitator Superfamily
27 362 InterPro IPR011701 Major facilitator superfamily
15 33 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
219 240 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
189 218 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
34 52 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
14 405 ProSiteProfiles PS50850 Major facilitator superfamily (MFS) profile.
14 405 InterPro IPR020846 Major facilitator superfamily domain
108 130 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
166 188 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
313 335 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
286 308 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
287 307 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
308 312 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
380 399 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
21 399 SUPERFAMILY SSF103473 MFS general substrate transporter
21 399 InterPro IPR036259 MFS transporter superfamily
73 83 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
257 279 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
313 335 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
131 141 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
53 72 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
142 164 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
72 88 ProSitePatterns PS00216 Sugar transport proteins signature 1.
72 88 InterPro IPR005829 Sugar transporter, conserved site
368 378 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
281 286 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
16 38 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
19 375 CDD cd17320 MFS_MdfA_MDR_like
84 105 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
19 396 PANTHER PTHR23502 MAJOR FACILITATOR SUPERFAMILY
241 259 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
20 397 Gene3D G3DSA:1.20.1720.10 Multidrug resistance protein D

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_A0A0H3GQD8
AlphaFold full sequence Viewing
ColabFold KP13_04269
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
23 0.969
12 0.625
13 0.262

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 32.82 0.945
2 3.02 0.099
3 2.83 0.088
4 2.21 0.053
5 1.78 0.033

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
CLM P0AEY8 323.1 Da LogP 0.91 TPSA 112.7 ✓ Ro5 ✓ Clean c1cc(ccc1[C@H]([C@@H](CO)NC(=O)C(Cl)Cl)O)[N+](=…
DXC P0AEY8 392.6 Da LogP 4.48 TPSA 77.8 ✓ Ro5 ✓ Clean C[C@H](CCC(=O)O)[C@H]1CC[C@@H]2[C@@]1([C@H](C[C…
KHJ P0AEY8 186.3 Da LogP 1.00 TPSA 7.8 ✓ Ro5 ✓ Clean C[n+]1ccc(cc1)c2cc[n+](cc2)C
LDA P0AEY8 229.4 Da LogP 4.48 TPSA 23.1 ✓ Ro5 ✓ Clean CCCCCCCCCCCC[N+](C)(C)[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.