VFG013414

Help to interpret the results

Three outputs have been generated:
General: this tab contains the description, occurence in the database and other information related to the selected Virulence factor VFG013414
Protein list: lists the 7 occurences of the Virulence factor within the database. The table reports information on each occurence.
Profile: phylogenetic tree annotated with
- the presence of the Virulence factor of interest within all the genomes of the database (first column)
- the size of the orthogroup(s) in which the reported Virulence factor has been clustered.
Orthogroups are shown in red if they are annotated with that particular Virulence factor in a given genome , in green otherwise, i.e. if there is a discrepency between orthogroup clustering and Virulence factor prediction.
Green homologs (same orthogroup) are not positive hit(s) for the considered Virulence factor.
Variations within orthogroups may be due to the clustering of multi domain proteins or because of erroneous homolog clustering or Virulence factor prediction.

Description

Protein UDP-3-O-(R-3-hydroxymyristoyl)-N-acetylglucosamine deacetylase
VF ID VF0044
Category Immune modulation
Protein ID WP_012054478
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

VFG013414 is associated with 7 different proteins
The 7 proteins are classified into 1 different orthogroup(s)
Orthogroup Locus Start Stop S. Gene Product Organism
0 group_920 FBDBKF_04305 48807 49724 -1 lpxC UDP-3-O-acyl-N-acetylglucosamine deacetylase Morganella morganii S1
1 group_920 EHELCC_05595 108264 109181 -1 lpxC UDP-3-O-acyl-N-acetylglucosamine deacetylase Morganella morganii S2
2 group_920 NLDBIP_05915 149329 150246 -1 lpxC UDP-3-O-acyl-N-acetylglucosamine deacetylase Morganella morganii S4
3 group_920 LHKJJB_02795 126853 127770 -1 lpxC UDP-3-O-acyl-N-acetylglucosamine deacetylase Morganella morganii S3
4 group_920 HKOGLL_06270 48717 49634 -1 lpxC UDP-3-O-acyl-N-acetylglucosamine deacetylase Morganella morganii S5
5 group_920 F4V73_RS08750 1809922 1810839 -1 lpxC UDP-3-O-acyl-N-acetylglucosamine deacetylase Morganella psychrotolerans
6 group_920 PMI_RS10170 2227054 2227971 -1 lpxC UDP-3-O-acyl-N-acetylglucosamine deacetylase Proteus mirabilis HI4320