Protein profile

VK055_4658

outer membrane assembly lipoprotein YfgL

Genome: KpATCC43816

Gene: yfgL AIK83192.1 Structure source: Experimental + ColabFold UniProt A0A0W8AU86
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Amino acids 392
Annotations 4
Features 35
PDB binders 0
Druggability 0.438

Overview

Basic information about this protein and its source genome.

Accession
VK055_4658
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
yfgL AIK83192.1
Status
annotated
Amino acids
392
Structure source
Experimental + ColabFold
GO
GO:0005515 Binding to a protein. GO:0009279 A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures. GO:0043165 The assembly of an outer membrane of the type formed in Gram-negative bacteria. This membrane is enriched in polysaccharide and protein, and the outer leaflet of the membrane contains specific lipopolysaccharide structures. GO:0051205 The process that results in the incorporation of a protein into a biological membrane. Incorporation in this context means having some part or covalently attached group that is inserted into the the hydrophobic region of one or both bilayers.

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 (%)
39.487
Localization
Unknown
ColabFold pLDDT
91.28

Selected Druggability evidence

PDB experimental structure

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 0.438
Structure 8ORR
Pocket Pocket 15
P2Rank 0.671
Structure 8ORR
Pocket Pocket 1
ColabFold model
FPocket 0.841 · Pocket 1
P2Rank 0.406 · Pocket 1
Core conservation Conserved core gene
Roary core
CoreCruncher core
Gut microbiome 105 / 4744 genomes with a hit
Normalized 0.022

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:0005515 Binding to a protein.
  • GO:0009279 A lipid bilayer that forms the outermost membrane of the cell envelope; enriched in polysaccharide and protein; the outer leaflet of the membrane contains specific lipopolysaccharide structures.
  • GO:0043165 The assembly of an outer membrane of the type formed in Gram-negative bacteria. This membrane is enriched in polysaccharide and protein, and the outer leaflet of the membrane contains specific lipopolysaccharide structures.
  • GO:0051205 The process that results in the incorporation of a protein into a biological membrane. Incorporation in this context means having some part or covalently attached group that is inserted into the the hydrophobic region of one or both bilayers.

Sequence Features

Domain/signature hits from InterPro and related databases.

35 records
Show feature table
Start End DB Term Name
31 392 CDD cd10276 BamB_YfgL
1 5 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide.
1 25 Phobius SIGNAL_PEPTIDE Signal peptide region
21 391 Gene3D G3DSA:2.130.10.10 -
21 391 InterPro IPR015943 WD40/YVTN repeat-like-containing domain superfamily
2 392 Hamap MF_00923 Outer membrane protein assembly factor BamB [bamB].
2 392 InterPro IPR017687 Outer membrane protein assembly factor BamB
1 22 SignalP_EUK SignalP-noTM SignalP-noTM
1 25 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM
1 20 ProSiteProfiles PS51257 Prokaryotic membrane lipoprotein lipid attachment site profile.
78 319 Pfam PF13360 PQQ-like domain
78 319 InterPro IPR002372 Pyrrolo-quinoline quinone repeat
8 390 NCBIfam TIGR03300 outer membrane protein assembly factor BamB
8 390 InterPro IPR017687 Outer membrane protein assembly factor BamB
6 17 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide.
45 388 PANTHER PTHR34512 CELL SURFACE PROTEIN
289 320 SMART SM00564 ire1_9
289 320 InterPro IPR018391 Pyrrolo-quinoline quinone beta-propeller repeat
200 231 SMART SM00564 ire1_9
200 231 InterPro IPR018391 Pyrrolo-quinoline quinone beta-propeller repeat
251 282 SMART SM00564 ire1_9
251 282 InterPro IPR018391 Pyrrolo-quinoline quinone beta-propeller repeat
329 361 SMART SM00564 ire1_9
329 361 InterPro IPR018391 Pyrrolo-quinoline quinone beta-propeller repeat
64 96 SMART SM00564 ire1_9
64 96 InterPro IPR018391 Pyrrolo-quinoline quinone beta-propeller repeat
155 186 SMART SM00564 ire1_9
155 186 InterPro IPR018391 Pyrrolo-quinoline quinone beta-propeller repeat
114 146 SMART SM00564 ire1_9
114 146 InterPro IPR018391 Pyrrolo-quinoline quinone beta-propeller repeat
26 392 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
1 23 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM
25 385 SUPERFAMILY SSF50998 Quinoprotein alcohol dehydrogenase-like
25 385 InterPro IPR011047 Quinoprotein alcohol dehydrogenase-like superfamily
18 25 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide.

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

1 + 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 8ORR
X-ray 1.68 Å AAA
92.3% 31-392
PDBe RCSB PDBj File
Viewing
ColabFold VK055_4658
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
15 0.438
7 0.4

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 13.02 0.671
2 8.84 0.473
3 5.35 0.253