Protein profile

PA3098

type II secretion system protein J

Genome: NC_002516.2

Gene: pddD xcpW PA3098 Structure source: Experimental + AlphaFold UniProt Q00517
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Amino acids 237
Annotations 3
Features 23
PDB binders 0
Druggability 0.808

Overview

Basic information about this protein and its source genome.

Accession
PA3098
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
pddD xcpW PA3098
Status
annotated
Amino acids
237
Structure source
Experimental + AlphaFold
GO
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:0015627 A large protein complex, containing 12-15 subunits, that spans the cell envelope of Gram-negative bacteria and mediates the movement of proteins into the extracellular environment. The complex includes a component in the cytoplasm, an inner membrane subcomplex that reaches into the periplasmic compartment and a secretion pore in the outer membrane. Proteins using the Type II pathway are transported across the cytoplasmic membrane by the Sec or Tat complex. GO:0015628 The process in which proteins are secreted across the outer membrane of Gram-negative bacteria by the type II secretion system. Proteins using this pathway are first translocated across the cytoplasmic membrane via the Sec or Tat pathways.

Target profile

Computed evidence for target prioritization.

Human off-target
No hit
Gut microbiome off-target
hit
Essential (DEG)
N
Localization
CytoplasmicMembrane

Selected Druggability evidence

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 0.808
Structure –
Pocket –

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

3 GO

Gene Ontology (GO)

3
  • 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:0015627 A large protein complex, containing 12-15 subunits, that spans the cell envelope of Gram-negative bacteria and mediates the movement of proteins into the extracellular environment. The complex includes a component in the cytoplasm, an inner membrane subcomplex that reaches into the periplasmic compartment and a secretion pore in the outer membrane. Proteins using the Type II pathway are transported across the cytoplasmic membrane by the Sec or Tat complex.
  • GO:0015628 The process in which proteins are secreted across the outer membrane of Gram-negative bacteria by the type II secretion system. Proteins using this pathway are first translocated across the cytoplasmic membrane via the Sec or Tat pathways.

Sequence Features

Domain/signature hits from InterPro and related databases.

23 records
Show feature table
Start End DB Term Name
201 237 MobiDBLite mobidb-lite consensus disorder prediction
7 29 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
1 207 PANTHER PTHR39583 TYPE II SECRETION SYSTEM PROTEIN J-RELATED
4 27 NCBIfam TIGR02532 prepilin-type N-terminal cleavage/methylation domain
4 27 InterPro IPR012902 Prokaryotic N-terminal methylation site
57 197 Pfam PF11612 Type II secretion system (T2SS), protein J
57 197 InterPro IPR010055 Type II secretion system protein GspJ
12 30 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
1 27 Pfam PF07963 Prokaryotic N-terminal methylation motif
1 27 InterPro IPR012902 Prokaryotic N-terminal methylation site
7 47 SUPERFAMILY SSF54523 Pili subunits
7 47 InterPro IPR045584 Pilin-like
31 237 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
36 143 Gene3D G3DSA:3.10.610.10 -
146 202 Gene3D G3DSA:2.10.70.20 -
47 67 Coils Coil Coil
5 199 NCBIfam TIGR01711 type II secretion system minor pseudopilin GspJ
5 199 InterPro IPR010055 Type II secretion system protein GspJ
39 204 SUPERFAMILY SSF54523 Pili subunits
39 204 InterPro IPR045584 Pilin-like
5 25 ProSitePatterns PS00409 Prokaryotic N-terminal methylation site.
5 25 InterPro IPR012902 Prokaryotic N-terminal methylation site

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

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Structural evidence

4 + 1

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry Method Resolution Chain Coverage Links Status
PDB 3NJE
X-ray 1.85 Å A,B
88.6% 28-237
PDBe RCSB PDBj File
Viewing
PDB 5VTM
X-ray 2.04 Å W
81.9% 44-237
PDBe RCSB PDBj File
Loaded
PDB 6UTU
X-ray 2.85 Å B,E,H
81.9% 44-237
PDBe RCSB PDBj File
Loaded
PDB 5BW0
X-ray 2.00 Å A,C,E,G
74.7% 28-204
PDBe RCSB PDBj File
Loaded
AlphaFold PA3098
AlphaFold — — 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
3 0.808

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 5.11 0.235
2 1.64 0.027
3 0.99 0.005