Table 4

Characteristics of ORFs in the C. sakazakii O5 O-antigen gene clustera

ORFGeneGene position (length [aa])G+C content (%)Pfam conserved domain(s) (Pfam no./e-value)Similar protein(s), strain(s) (GenBank accession no.)% Identity (aa overlap)Putative function of protein
5-1rmlB183–1265 (360)49.86NAD-dependent epimerase/dehydratase family (PF01370/3.6e-81)dTDP-d-glucose-4,6-dehydratase, C. sakazakii (ABX51885.1)97 (360)Glucose dehydratase
5-2rmlD1268–2164 (298)49.72RmlD substrate-binding domain (PF04321/2.2e-111)dTDP-6-deoxy-l-mannose dehydrogenase, C. sakazakii (ABX51886.1)96 (295)Mannose dehydrogenase
5-3rmlA2214–3092 (292)47.55Nucleotidyltransferase (PF00483/6.5e-73)Glucose-1-phosphate thymidylyltransferase, C. sakazakii (ABX51887.1)94 (292)Glucose-1-phosphate thymidylyltransferase
5-4rmlC3096–3644 (182)40.98dTDP-4-dehydrorhamnose 3,5-epimerase (PF00908/2.2e-78)Putative dTDP-4-dehydrorhamnose 3,5-epimerase, Shigella sp. strain D9 (ZP_05431654.1)69 (185)dTDP-4-dehydrorhamnose 3,5-epimerase
5-5qdtA3647–4066 (139)38.57dTDP-4-dehydrorhamnose 3,5-epimerase (PF00908/2.2e-78)QdtA E. coli (ADI77029)76 (129)dTDP-4-oxo-6-deoxy-d-glucose-3,4-oxoisomerase
5-6qdtC4041–4511 (156)38.85Transferase hexapeptide (PF00132/0.02)QdtC E. coli (ADI77035)68 (147)Transacetylase
5-7qdtB4498–5607 (369)41.17DegT/DnrJ/EryC1/StrS aminotransferase family (PF01041/1.4e-111)QdtB E. coli (ADI77030)63 (366)Transaminase
5-8wzx5604–6854 (416)36.45Polysaccharide biosynthesis protein (PF01943/2e-10)O-antigen flippase C. sakazakii (ABX51878)47 (413)Flippase
5-9wepH6905–7807 (300)31.67Glycosyltransferase family 2 (PF00535/5.5e-24)Putative glycosyltransferase P. rettgeri DSM 1131 (EFE51496)39 (281)Glycosyltransferase
5-10wepI7956–9011 (351)33.61Glycosyltransferase group 1 (PF00534/8.9e-06)α-d-GlcNAc α-1,2-l-rhamnosyltransferase V. mimicus VM223 (EEY46453)64 (349)Glycosyltransferase
5-11wepJ9067–10158 (363)32.60Hypothetical protein CLOBOL_01216, C. bolteae ATCC BAA-613 (EDP18345)26 (255)Glycosyltransferases
5-12wepK10158–11072 (304)29.61Hypothetical protein glycosyltransferase Eps5K, S. thermophilus32 (297)Glycosyltransferases
5-13wzy11056–12153 (365)31.23Conserved hypothetical protein, Bacteroides sp. strain 1_1_6 (ZP_04850089.1)24 (241)Polymerase
  • a aa, amino acid(s).