Protein profile

KP13_02042

Phosphatidylglycerophosphatase A

Genome: KpKP13

Gene: pgpA AHE46045.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GKE2
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Amino acids 155
Annotations 7
Features 24
PDB binders 0
Druggability 0.739

Overview

Basic information about this protein and its source genome.

Accession
KP13_02042
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
pgpA AHE46045.1
Status
annotated
Amino acids
155
Structure source
AlphaFold + ColabFold
EC
3.1.3.27
GO
GO:0006629 The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids. GO:0008962 Catalysis of the reaction: phosphatidylglycerophosphate + H2O = phosphatidylglycerol + phosphate. 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:0046872 Binding to a metal ion. GO:0006655 The chemical reactions and pathways resulting in the formation of phosphatidylglycerols, any of a class of phospholipids in which the phosphatidyl group is esterified to the hydroxyl group of glycerol. GO:0009395 The chemical reactions and pathways resulting in the breakdown of phospholipids, any lipid containing phosphoric acid as a mono- or diester.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
89.677
DEG E-value
6.8e-103
Localization
CytoplasmicMembrane
ColabFold pLDDT
91.28

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 0.739
Structure A0A0H3GKE2
Pocket Pocket 1
P2Rank 0.808
Structure A0A0H3GKE2
Pocket Pocket 1
ColabFold model
FPocket 0.779 · Pocket 2
P2Rank 0.741 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 109 / 4744 genomes with a hit
Normalized 0.023

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 6 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

6
  • GO:0006629 The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.
  • GO:0008962 Catalysis of the reaction: phosphatidylglycerophosphate + H2O = phosphatidylglycerol + phosphate.
  • 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:0046872 Binding to a metal ion.
  • GO:0006655 The chemical reactions and pathways resulting in the formation of phosphatidylglycerols, any of a class of phospholipids in which the phosphatidyl group is esterified to the hydroxyl group of glycerol.
  • GO:0009395 The chemical reactions and pathways resulting in the breakdown of phospholipids, any lipid containing phosphoric acid as a mono- or diester.

Sequence Features

Domain/signature hits from InterPro and related databases.

24 records
Show feature table
Start End DB Term Name
80 107 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
127 146 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 153 PIRSF PIRSF006162 PgpA
1 153 InterPro IPR026037 Phosphatidylglycerophosphatase A
7 16 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
1 146 SUPERFAMILY SSF101307 YutG-like
1 146 InterPro IPR036681 PgpA-like superfamily
1 28 Phobius SIGNAL_PEPTIDE Signal peptide region
60 79 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
17 28 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.
38 60 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
108 126 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
38 59 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
8 145 Pfam PF04608 Phosphatidylglycerophosphatase A
8 145 InterPro IPR007686 YutG/PgpA domain
133 152 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
2 148 PANTHER PTHR36305 PHOSPHATIDYLGLYCEROPHOSPHATASE A
2 148 InterPro IPR026037 Phosphatidylglycerophosphatase A
147 155 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
29 37 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
5 146 CDD cd06971 PgpA
5 146 InterPro IPR007686 YutG/PgpA domain
12 34 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_A0A0H3GKE2
AlphaFold — — full sequence — Viewing
ColabFold KP13_02042
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 0.739
2 0.258

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 13.01 0.671
2 4.23 0.173
3 1.95 0.041
4 1.05 0.006