TABLE 3.
Putative core OS biosynthesis gene products of V. cholerae
| ORF straina | New ORF designation | Motifs present in deduced protein sequence | Predicted putative function in core OS assembly | Related sequences (BlastP) | Accession no. or reference | % Identity | wav typesb |
|---|---|---|---|---|---|---|---|
| VC0223 | wavAc | Glycosyl transferase 9 (CDd) | HepIII transferase | PM1294 | AAK03378 | 58 | 1, 2, 3, 4, 5 |
| WaaQ, Haemophilus ducreyi | AAF72875 | 55 | |||||
| VC0224 | wavB | Glycosyl-transferase 2 (CD) | B1,4-Glucosyltransferase | PM1306 | AAK03390 | 68 | 1, 2, 3, 4, 5 |
| LgtF, H. ducreyi | AAF72876 | 67 | |||||
| VC0225 | waaC | Glycosyltransferase 2 + 9 (CD) | HepI transferase | OpsX, Haemophilus influenzae | B64058 | 46 | 1, 2, 3, 4, 5 |
| RfaC, Helicobacter pylori | AAB65778 | 25 | |||||
| VC0227 | wavC | Protein kinase (CD) | Kdo kinase | KdkA, Photobacterium damselae | BAB72027 | 55 | 1, 2, 3, 4, 5 |
| KdkA, H. influenzae | CAC07181 | 48 | |||||
| VC0228 | wavD | Unknown | VC0229 | 31 | 1 | ||
| VC0229 | wavE | Unknown | ORF, P. damselae | BAB72032 | 37 | 1, 2, 3, 4 | |
| VC0228 | 31 | ||||||
| VC0230 | wavF | UPF007 (CD) | Unknown | ORF, P. damselae | BAB72033 | 63 | 1, 2, 3, 4 |
| BcbE, Pasteurella multocida | AAF67267 | 46 | |||||
| VC0231 | wavG | Unknown | ORF, P. damselae | BAB72034 | 53 | 1, 2, 3, 4 | |
| BcbG, P. multocida | AAF67269 | 34 | |||||
| VC0232 | wavH | Unknown | ORF, P. damselae | BAB72026 | 78 | 1, 2, 3, 4 | |
| BcbF, P. multocida | AAF67268 | 64 | |||||
| VC0233 | waaA | Glycosyltransferase I (CD) | Kdo transferase | KdtA, P. damselae | BAB72028 | 51 | 1, 2, 3, 4, 5 |
| WaaA, Salmonella enterica serovar Typhimurium | AAC16417 | 40 | |||||
| VC0234 | wavI | Glycosyltransferase family 32e | Glycosyltransferase | PM1 1,16 | AAK03200 | 51 | 1, 2, 3, 4, 5 |
| VC0235 | wavJ | Glycosyltransferase 9 (CD) | HepIV transferase | WaaC, Bordetella bronchiseptica | CAA07672 | 21 | 1 |
| VC0225 | |||||||
| VC0236 | waaF | Glycosyltransferase 9 (CD) | HepII transferase | RfaF, Pseudomonas aeruginosa | AAG08397 | 53 | 1, 2, 3, 4, 5 |
| RfaF, Salmonella enterica serovar typhimurium | P37421 | 59 | |||||
| VC0237 | waaL | 9 TMHf | O-antigen ligase | 1, 2, 3, 4, 5 | |||
| VC0238 | wavK | O-acetyltransferase family 3g | O-acetyltransferase | LacA, Methanococcus jannaschii | AAB99067 | 30 | 1, 2, 3, 4 |
| VC0239 | wavL | Glycosyltransferase 1 + polysaccharide deacetylase (CD) | Glycosyltransferase | BME11603 | AAL52784 | 32 | 1, 2, 3, 4, 5 |
| RP344 | B71691 | 25 | |||||
| VC0240 | gmhD | Epimerase (CD) | ADP-l-glycero-d-manno-heptose-epimerase | RfaD, H. influenzae | AAC22768 | 73 | 1, 2, 3, 4, 5 |
| RfaD, E. coli | AAA24525 | 74 | |||||
| V194 | wavM | Glycosyltransferase 25 (CD) | Glycosyltransferase (galactosyl?) | Lex2B, H. influenzae HPO826 | AAA6037540 | 34 37 | 3, 4 |
| V209 | wavN | DUF33 (CD) | O-acetyltransferase | SMb20810, Sinorhizobium meliloti | CAC48950 | 28 | 4 |
| O-acetyltransferase family 2h | |||||||
| 9 TMH | PA5238 | E82991 | 28 | ||||
| WbpC, Neisseria meningitidis | AAF42171 | 31 | |||||
| V209 | wavO | O-acetyltransferase family 3g | O-acetyltransferase | ORF11, Campylobacter jejuni | AAF34147 | 42 | 4 |
| V192 | wavP | Glycosyltransferase 2 (CD) | Glycosyltransferase | ORF3, C. jejuni | AAK95997 | 26 | 5 |
| YP00187 | CAC89049 | 29 | |||||
| V192 | wavQ | Unknown | 5 | ||||
| V192 | wavR | pfam 01041 + pfam 00155 + pfam 01053 (CD) | Fuc4Nac pathway (TDP-4-oxo-6-deoxy-d-glucose transaminase) | WecE, S. enterica serovar typhimurium | AAL22774 | 65 | 5 |
| RffA, E. coli | P27833 | 64 | |||||
| YP03859 | CAC93327 | 62 | |||||
| V192 | wavS | Acetyltransferase | Fuc4Nac pathway | WecD, S. enterica serovar typhimurium | AAF33463 | 35 | 5 |
| YP03860 | CAC93328 | 36 | |||||
| V192 | wavT | Glycosyltransferase 2 (CD) | Glycosyltransferase (galactosyl?) | ORF3, C. jejuni | AAK91721 | 30 | 5 |
| CPE0481 | BAB80187 | 28 |
Either the ORF designation of the V. cholerae genome sequence (VC number) or the name of the sequenced strain (V number) used for sequence analysis is indicated.
V. cholerae wav gene cluster types carrying a similar gene.
This ORF was not named waaQ, since characterized enterobacterial WaaQ enzymes link HepIII α-1,7 to HepII (27), whereas the characterized WaaQ enzyme of H. ducreyi links HepIII α-1,2 to HepII (21) as also proposed for V. cholerae (Fig. 1A).
CD, conserved domain database at NCBI via BlastP.
VC0234 is listed in CAZY (http://afmb.cnrs-mrs.fr/|P5cazy/CAZY/index.html). Among the members of the glycosyltransferase family, 32 are characterized N-acetylglucosamine transferases, so it seems possible that WavI is involved in the linkage of α-GlcN to HepIII (Fig. 1A).
Number of predicted transmembrane helices (TMH).
WavK and WavO share conserved regions with the soluble family 3 of O-acetyltransferases (12).
WavN could be assigned to family 2 of large integral membrane O-acetyltransferases (12).