Protein profile

KP13_00381

DNA-damage-inducible protein F

Genome: KpKP13

Gene: dinF AHE46880.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GGV5
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Amino acids 438
Annotations 5
Features 47
PDB binders 3
Druggability 0.788

Overview

Basic information about this protein and its source genome.

Accession
KP13_00381
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
dinF AHE46880.1
Status
annotated
Amino acids
438
Structure source
AlphaFold + ColabFold
GO
GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it. GO:0015297 Enables the active transport of a solute across a membrane by a mechanism whereby two or more species are transported in opposite directions in a tightly coupled process not directly linked to a form of energy other than chemiosmotic energy. The reaction is: solute A(out) + solute B(in) = solute A(in) + solute B(out). GO:0042910 Enables the directed movement of a xenobiotic from one side of a membrane to the other. A xenobiotic is a compound foreign to the organism exposed to it. It may be synthesized by another organism (like ampicilin) or it can be a synthetic chemical. 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.

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
91.74

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 0.788
Structure A0A0H3GGV5
Pocket Pocket 28
P2Rank 0.893
Structure A0A0H3GGV5
Pocket Pocket 1
ColabFold model
FPocket 0.758 · Pocket 32
P2Rank 0.974 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 77 / 4744 genomes with a hit
Normalized 0.016

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:0015297 Enables the active transport of a solute across a membrane by a mechanism whereby two or more species are transported in opposite directions in a tightly coupled process not directly linked to a form of energy other than chemiosmotic energy. The reaction is: solute A(out) + solute B(in) = solute A(in) + solute B(out).
  • GO:0042910 Enables the directed movement of a xenobiotic from one side of a membrane to the other. A xenobiotic is a compound foreign to the organism exposed to it. It may be synthesized by another organism (like ampicilin) or it can be a synthetic chemical.
  • 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
130 152 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
386 403 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
186 208 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
13 35 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
45 67 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
65 83 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
266 288 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
186 208 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
181 185 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
408 427 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
375 385 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
284 319 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
31 41 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
7 429 CDD cd13136 MATE_DinF_like
7 429 InterPro IPR044644 Multi antimicrobial extrusion protein DinF-like
42 64 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
133 154 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
161 180 Phobius TRANSMEMBRANE 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.
352 374 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
16 409 NCBIfam TIGR00797 MATE family efflux transporter
16 409 InterPro IPR002528 Multi antimicrobial extrusion protein
387 404 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
240 259 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
209 239 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
320 342 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
352 374 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
16 176 Pfam PF01554 MatE
16 176 InterPro IPR002528 Multi antimicrobial extrusion protein
240 392 Pfam PF01554 MatE
240 392 InterPro IPR002528 Multi antimicrobial extrusion protein
260 264 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
7 436 PANTHER PTHR42893 PROTEIN DETOXIFICATION 44, CHLOROPLASTIC-RELATED
7 436 InterPro IPR044644 Multi antimicrobial extrusion protein DinF-like
155 160 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
320 340 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
341 351 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
404 408 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
265 283 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
106 132 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
240 262 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
428 438 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
9 30 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
409 427 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
84 105 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
88 110 TMHMM TMhelix 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_A0A0H3GGV5
AlphaFold — — full sequence — Viewing
ColabFold KP13_00381
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
28 0.788

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 22.38 0.88
2 18.12 0.815
3 4.6 0.199
4 3.75 0.144
5 2.21 0.053

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.

53 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
BNU
3VVP
Q8U2X0 380.2 Da LogP 1.89 TPSA 74.6 ✓ Ro5 ✓ Clean CCN1C=C(C(=O)c2c1cc(c(c2)Br)N3CCNCC3)C(=O)O
CXE
4MLB
Q8U2X0 378.6 Da LogP 3.20 TPSA 66.4 ✓ Ro5 ✓ Clean CCCCCCCCCCOCCOCCOCCOCCOCCO
OLC
3VVN
Q8U2X0 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.