Protein profile

KP13_00796

CDP-diacylglycerol--serine O-phosphatidyltransferase

Genome: KpKP13

Gene: pssA AHE43161.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GTV1
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Amino acids 451
Annotations 5
Features 18
PDB binders 0
Druggability 0.221

Overview

Basic information about this protein and its source genome.

Accession
KP13_00796
Assembly
Klebsiella pneumoniae subsp. pneumoniae Kp13, complete sequence
Gene
pssA AHE43161.1
Status
annotated
Amino acids
451
Structure source
AlphaFold + ColabFold
GO
GO:0032049 The chemical reactions and pathways resulting in the formation of cardiolipin, 1,3-bis(3-phosphatidyl)glycerol. GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic. GO:0008444 Catalysis of the reaction: sn-glycerol 3-phosphate + CDP-diacylglycerol = 3-(3-sn-phosphatidyl)-sn-glycerol 1-phosphate + CMP + H+. GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes. GO:0003882 Catalysis of the reaction: CDP-diacylglycerol + L-serine = CMP + O-sn-phosphatidyl-L-serine.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
27.749
Human E-value
2.25e-07
Gut microbiome off-target
hit
Essential (DEG)
Y
DEG identity (%)
89.327
DEG E-value
0.0
Localization
Cytoplasmic
ColabFold pLDDT
95.25

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 0.221
Structure A0A0H3GTV1
Pocket Pocket 12
P2Rank 0.92
Structure A0A0H3GTV1
Pocket Pocket 1
ColabFold model
FPocket 0.339 · Pocket 27
P2Rank 0.883 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 131 / 4744 genomes with a hit
Normalized 0.028

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:0032049 The chemical reactions and pathways resulting in the formation of cardiolipin, 1,3-bis(3-phosphatidyl)glycerol.
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0008444 Catalysis of the reaction: sn-glycerol 3-phosphate + CDP-diacylglycerol = 3-(3-sn-phosphatidyl)-sn-glycerol 1-phosphate + CMP + H+.
  • GO:0005829 The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
  • GO:0003882 Catalysis of the reaction: CDP-diacylglycerol + L-serine = CMP + O-sn-phosphatidyl-L-serine.

Sequence Features

Domain/signature hits from InterPro and related databases.

18 records
Show feature table
Start End DB Term Name
238 431 CDD cd09136 PLDc_PSS_G_neg_2
19 447 Gene3D G3DSA:3.30.870.10 Endonuclease Chain A
9 215 SUPERFAMILY SSF56024 Phospholipase D/nuclease
1 451 PIRSF PIRSF000850 PLD_PSS
133 159 SMART SM00155 pld_4
133 159 InterPro IPR001736 Phospholipase D/Transphosphatidylase
352 379 SMART SM00155 pld_4
352 379 InterPro IPR001736 Phospholipase D/Transphosphatidylase
231 447 FunFam G3DSA:3.30.870.10:FF:000006 CDP-diacylglycerol--serine O-phosphatidyltransferase
352 379 ProSiteProfiles PS50035 Phospholipase D phosphodiesterase active site profile.
7 435 PANTHER PTHR12586 CDP-DIACYLGLYCEROL--SERINE O-PHOSPHATIDYLTRANSFERASE
7 435 InterPro IPR016270 CDP-alcohol phosphatidyltransferase class-II family
253 393 SUPERFAMILY SSF56024 Phospholipase D/nuclease
257 394 Pfam PF13091 PLD-like domain
257 394 InterPro IPR025202 Phospholipase D-like domain
24 230 FunFam G3DSA:3.30.870.10:FF:000008 CDP-diacylglycerol--serine O-phosphatidyltransferase
17 190 CDD cd09134 PLDc_PSS_G_neg_1
24 232 Gene3D G3DSA:3.30.870.10 Endonuclease Chain A

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_A0A0H3GTV1
AlphaFold — — full sequence — Viewing
ColabFold KP13_00796
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
12 0.221
8 0.218

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 24.41 0.898
2 2.77 0.085
3 2.52 0.07