Protein profile

VK055_2463

type II secretion system (T2SS), F family protein

Genome: KpATCC43816

Gene: AIK81060.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3GI88
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Amino acids 401
Annotations 4
Features 35
PDB binders 1
Druggability 0.892

Overview

Basic information about this protein and its source genome.

Accession
VK055_2463
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK81060.1
Status
annotated
Amino acids
401
Structure source
AlphaFold + ColabFold
GO
GO:0009306 The controlled release of proteins from a cell. GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it. 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: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
Human identity (%)
0.0
Gut microbiome off-target
hit
Essential (DEG)
N
DEG identity (%)
29.972
Localization
CytoplasmicMembrane
ColabFold pLDDT
85.05

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 0.892
Structure A0A0H3GI88
Pocket Pocket 25
P2Rank 0.084
Structure A0A0H3GI88
Pocket Pocket 1
ColabFold model
FPocket 0.82 · Pocket 9
P2Rank 0.178 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 62 / 4744 genomes with a hit
Normalized 0.013

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

4 GO

Gene Ontology (GO)

4
  • GO:0009306 The controlled release of proteins from a cell.
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • 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: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.

35 records
Show feature table
Start End DB Term Name
205 230 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
250 366 FunFam G3DSA:1.20.81.30:FF:000001 Type II secretion system protein F
48 165 FunFam G3DSA:1.20.81.30:FF:000001 Type II secretion system protein F
158 186 PRINTS PR00812 Bacterial general secretion pathway protein F signature
158 186 InterPro IPR003004 GspF/PilC family
361 375 PRINTS PR00812 Bacterial general secretion pathway protein F signature
361 375 InterPro IPR003004 GspF/PilC family
377 396 PRINTS PR00812 Bacterial general secretion pathway protein F signature
377 396 InterPro IPR003004 GspF/PilC family
59 71 PRINTS PR00812 Bacterial general secretion pathway protein F signature
59 71 InterPro IPR003004 GspF/PilC family
158 186 ProSitePatterns PS00874 Bacterial type II secretion system protein F signature.
158 186 InterPro IPR001992 T2SS_GspF/T4SS_PilC conserved site
186 204 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
273 368 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
231 249 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
162 185 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
369 387 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
212 234 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
60 165 Gene3D G3DSA:1.20.81.30 Type II secretion system (T2SS), domain F
60 165 InterPro IPR042094 Type II secretion system GspF domain superfamily
6 396 PANTHER PTHR30012 GENERAL SECRETION PATHWAY PROTEIN
6 396 InterPro IPR003004 GspF/PilC family
368 390 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
247 269 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
269 388 Pfam PF00482 Type II secretion system (T2SS), protein F
269 388 InterPro IPR018076 Type II secretion system protein GspF domain
64 186 Pfam PF00482 Type II secretion system (T2SS), protein F
64 186 InterPro IPR018076 Type II secretion system protein GspF domain
163 185 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
1 161 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
250 272 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
250 360 Gene3D G3DSA:1.20.81.30 Type II secretion system (T2SS), domain F
250 360 InterPro IPR042094 Type II secretion system GspF domain superfamily
388 401 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.

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_A0A0H3GI88
AlphaFold — — full sequence — Viewing
ColabFold VK055_2463
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
25 0.892
36 0.774
5 0.525
12 0.424

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 2.01 0.043
2 0.81 0.003

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.

51 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
PE5
3C1Q
P45780 398.5 Da LogP 0.13 TPSA 94.1 ✓ Ro5 ✓ Clean CCOCCOCCOCCOCCOCCOCCOCCOCCO

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.