Protein profile

VK055_0077

lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase

Genome: KpATCC43816

Gene: msbB AIK78705.1 Structure source: AlphaFold + ColabFold UniProt A0A0H3H045
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Amino acids 324
Annotations 8
Features 16
PDB binders 0
Druggability 0.86

Overview

Basic information about this protein and its source genome.

Accession
VK055_0077
Assembly
Klebsiella pneumoniae subsp. pneumoniae strain ATCC 43816 KPPR1, complete genome
Gene
msbB AIK78705.1
Status
annotated
Amino acids
324
Structure source
AlphaFold + ColabFold
EC
2.3.1.243
GO
GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it. GO:0016740 Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2. GO:0009103 The chemical reactions and pathways resulting in the formation of lipopolysaccharides, any of a group of related, structurally complex components of the outer membrane of Gram-negative bacteria. GO:0016747 Catalysis of the transfer of an acyl group, other than amino-acyl, from one compound (donor) to another (acceptor). GO:0009276 The peptidoglycan layer of the Gram-negative cell envelope. In Gram-negative cells the peptidoglycan is relatively thin (1-2nm) and is linked to the outer membrane by lipoproteins. In Gram-negative cells the peptidoglycan is too thin to retain the primary stain in the Gram staining procedure and therefore cells appear red after Gram stain. 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)
Y
DEG identity (%)
83.901
DEG E-value
0.0
Localization
CytoplasmicMembrane
ColabFold pLDDT
94.92

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 0.86
Structure A0A0H3H045
Pocket Pocket 9
P2Rank 0.716
Structure A0A0H3H045
Pocket Pocket 1
ColabFold model
FPocket 0.817 · Pocket 25
P2Rank 0.931 · Pocket 1
Core conservation Accessory gene
Roary core
CoreCruncher accessory
Gut microbiome 110 / 4744 genomes with a hit
Normalized 0.023

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 7 GO

Enzyme Commission (EC)

1

Gene Ontology (GO)

7
  • GO:0016020 A lipid bilayer along with all the proteins and protein complexes embedded in it and attached to it.
  • GO:0016740 Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
  • GO:0009103 The chemical reactions and pathways resulting in the formation of lipopolysaccharides, any of a group of related, structurally complex components of the outer membrane of Gram-negative bacteria.
  • GO:0016747 Catalysis of the transfer of an acyl group, other than amino-acyl, from one compound (donor) to another (acceptor).
  • GO:0009276 The peptidoglycan layer of the Gram-negative cell envelope. In Gram-negative cells the peptidoglycan is relatively thin (1-2nm) and is linked to the outer membrane by lipoproteins. In Gram-negative cells the peptidoglycan is too thin to retain the primary stain in the Gram staining procedure and therefore cells appear red after Gram stain.
  • 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:0036104 The chemical reactions and pathways resulting in the formation of Kdo2-lipid A, a lipopolysaccharide (LPS) component.

Sequence Features

Domain/signature hits from InterPro and related databases.

16 records
Show feature table
Start End DB Term Name
112 304 CDD cd07984 LPLAT_LABLAT-like
112 304 InterPro IPR004960 Bacterial lipid A biosynthesis acyltransferase
24 43 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane.
6 314 PANTHER PTHR30606 LIPID A BIOSYNTHESIS LAUROYL ACYLTRANSFERASE
6 314 InterPro IPR004960 Bacterial lipid A biosynthesis acyltransferase
4 310 Hamap MF_01944 Lipid A biosynthesis myristoyltransferase [lpxM].
4 310 InterPro IPR011921 Lipid A biosynthesis myristoyltransferase
12 305 Pfam PF03279 Bacterial lipid A biosynthesis acyltransferase
12 305 InterPro IPR004960 Bacterial lipid A biosynthesis acyltransferase
1 23 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region.
44 324 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm.
10 314 NCBIfam TIGR02208 lauroyl-Kdo(2)-lipid IV(A) myristoyltransferase
10 314 InterPro IPR011921 Lipid A biosynthesis myristoyltransferase
21 43 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane.
9 314 PIRSF PIRSF026649 MsbB
9 314 InterPro IPR004960 Bacterial lipid A biosynthesis acyltransferase

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_A0A0H3H045
AlphaFold — — full sequence — Viewing
ColabFold VK055_0077
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
9 0.86
14 0.201

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 17.59 0.805
2 9.2 0.493
3 2.79 0.086
4 2.24 0.055
5 2.02 0.044