Protein profile

VK055_2407

type II secretion system protein C

Genome: KpATCC43816

Gene: AIK81004.1 gspC Structure source: Experimental + AlphaFold + ColabFold UniProt A0A0H3GMS7
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Amino acids 275
Annotations 4
Features 15
PDB binders 0
Druggability 0.059

Overview

Basic information about this protein and its source genome.

Accession
VK055_2407
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
AIK81004.1 gspC
Status
annotated
Amino acids
275
Structure source
Experimental + AlphaFold + ColabFold
GO
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:0005515 Binding to a protein. 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. 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 (%)
38.009
Localization
CytoplasmicMembrane
ColabFold pLDDT
74.03

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 0.059
Structure A0A0H3GMS7
Pocket Pocket 4
P2Rank 0.883
Structure A0A0H3GMS7
Pocket Pocket 1
ColabFold model
FPocket 0.954 · Pocket 13
P2Rank 0.869 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 8 / 4744 genomes with a hit
Normalized 0.002

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: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:0005515 Binding to a protein.
  • 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.
  • 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.

15 records
Show feature table
Start End DB Term Name
12 31 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
92 159 Gene3D G3DSA:2.30.30.830 -
175 270 SUPERFAMILY SSF50156 PDZ domain-like
175 270 InterPro IPR036034 PDZ superfamily
17 270 NCBIfam TIGR01713 type II secretion system protein GspC
17 270 InterPro IPR001639 Type II secretion system protein GspC
173 275 Gene3D G3DSA:2.30.42.10 -
173 275 InterPro IPR036034 PDZ superfamily
32 275 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
18 157 Pfam PF11356 Type II secretion system protein C
18 157 InterPro IPR024961 Type II secretion system protein GspC, N-terminal
9 31 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.
210 236 ProSitePatterns PS01141 Bacterial type II secretion system protein C signature.
210 236 InterPro IPR001639 Type II secretion system protein GspC

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

1 + 2

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

Entry Method Resolution Chain Coverage Links Status
PDB 6HCG
X-ray 20.00 Å - —
PDBe RCSB PDBj File
Viewing
AlphaFold AF_A0A0H3GMS7
AlphaFold — — full sequence — Loaded
ColabFold VK055_2407
ColabFold — — full sequence — Loaded
Pocket details FPocket · P2Rank — toggle visibility and zoom from here, or open full viewer

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 17.02 0.794
2 15.72 0.76
3 15.26 0.75
4 14.74 0.733
5 14.34 0.719