VFG013253


Help to interpret the results

Three outputs have been generated:
General: this result contains the description and frequency of the selected Virulence factors VFG013253, of which KO pathways and KO modules it is part. Additionally, its occurence in the database is reported.
Proteins list: list of occurences of the Virulence factors within the database. 7 occurences are identified. The table reports the orthogroup, the organism in which each occurrence has been found, and the locus tag enriched by start and stop position, strand, gene name and product.
Clicking on the Ortohgroup name or locus you will be redirected to further info.
Profiles: Phylogenetic tree annotated with
- the presence of the Virulence factor(s) of interest within all the genomes of the database (first column)
- the size of the orthogroup(s) in which the reported Virulence factors has been clustered.
In red the Virulence factors with positive hit(s) in the corresponding genome.
In green the discrepencies between orthogroup clustering and Virulence factors prediction. Green homologs (same orthogroup) are not positive hit(s) for the considered Virulence factors.

Variations within orthogroups may be due to the clustering of multi domain proteins or because of erroneous homolog clustering or Virulence factors prediction.

Description

Protein lipid transporter ATP-binding/permease
VF ID VF0044
Category Immune modulation
Protein ID WP_011609176
Characteristics Lic1A (phosphorylcholine (ChoP) kinase) 5'-CAAT-3' within the 5'-end of its coding sequence; lic2A, also referred to as lexA, variation in the number of 5'-CAAT-3' repeats has been shown to correlate directly with phase variation of the Gal-alpha(1-4)beta-Gal LPS structure; But lgtC (glycosyltransferase), another phase-variable gene, ultimately dictates whether this structure is synthesized. lic3A encode a sialyl transferase which directs the substitution of LPS with sialic acid.
Structure Comprising Lipid A, an inner core of one molecule 3-deoxy-D-manno-oct-2-ulopyranosonic acid (Kdo) and three molecules of heptose, and an outer core composed of a heteropolymer of the neutral sugars glucose and galactose. Substitution of the out core with phosphorylcholine or sialic acid results in the heterogeneity of LPS; Lack O-antigen
Function Major immunogen; LOS phosphorylcholine (ChoP) may influence invasion via interaction with PAF receptor and stimulates of inflammatory signals; LPS phase variation is characterized by the spontaneous loss and gain of oligosaccharide structures present in the outer core. the phase variable expression of LPS biosynthesis genes promotes evasion of antigen-specific host immune defences and allow colonization of different host microenvironments
Mechanism Lic1(lic1A-lic1D) responsible for the addition of phosphorylcholine to LPS. lic1A mediates phase variation (tetranucleotide repeat region); phase-variable gene lic3A encodes an alpha-2,3-sialyltransferase that is responsible for the addition of Neu5Ac to terminal lactose in the LPS, LPS sialylation has been shown to be important for resistance to the killing effectors of normal human serum
Vf_category_id VFC0258

Occurence in the database

VFG013253 is associated with 7 different proteins (see tab "Protein list" and "Profile")
The 7 proteins are classified into 1 different orthogroup(s)
# Orthogroup Locus Start Stop S. Gene Product Organism
0 group_1232 FBDBKF_07175 108961 110706 1 msbA lipid A ABC transporter ATP-binding protein/permease MsbA Morganella morganii S1
1 group_1232 EHELCC_03795 75480 77225 -1 msbA lipid A ABC transporter ATP-binding protein/permease MsbA Morganella morganii S2
2 group_1232 NLDBIP_03795 75276 77021 -1 msbA lipid A ABC transporter ATP-binding protein/permease MsbA Morganella morganii S4
3 group_1232 LHKJJB_09625 75390 77135 -1 msbA lipid A ABC transporter ATP-binding protein/permease MsbA Morganella morganii S3
4 group_1232 HKOGLL_09350 113917 115662 1 msbA lipid A ABC transporter ATP-binding protein/permease MsbA Morganella morganii S5
5 group_1232 F4V73_RS01360 297128 298876 1 msbA lipid A ABC transporter ATP-binding protein/permease MsbA Morganella psychrotolerans
6 group_1232 PMI_RS03530 788571 790316 1 msbA lipid A ABC transporter ATP-binding protein/permease MsbA Proteus mirabilis HI4320