Genome Property Definition Page

NameLPS inner core biosynthesis, ketodeoxyoctonate and heptose type
DescriptionLipopolysaccharide (LPS) occurs broadly in Gram-negative bacterial outer membrane. Three parts are termed lipid A, the oligosaccharide core, and O antigen. If lacking the repeating O-antigen, it may be termed Lipooligosaccharide (LOS). The core is often described as having inner and outer regions, and is variable among species that contain LPS/LOS. This property describes a widely distributed common chemistry for the inner core. At least two residues of 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) are present, to one of which the lipid A moeity is attached. The inner core in E. coli and many other bacteria also contains at least two heptose residues, added by distinct heptosyltransferases I and II.
JCVI RoleBiosynthesis and degradation of surface polysaccharides and lipopolysaccharides
Parent PropertyGenProp0297: lipopolysaccharide biosynthesis

Step NameStep NumRequiredEvidence (Method)Evidence Go Terms
D-sedoheptulose 7-phosphate isomeraseGmhAYESTIGR00441 (HMM): phosphoheptose isomerase
D,D-heptose 1,7-bisphosphate phosphataseGmhBYESTIGR00213 (HMM): D,D-heptose 1,7-bisphosphate phosphatase
ADP-L-glycero-D-mannoheptose-6-epimeraseHldDYESTIGR02197 (HMM): ADP-glyceromanno-heptose 6-epimerase
RfaE bifunc, domain IIHldE_CYESTIGR02199 (HMM): bifunctional protein RfaE, domain II
RfaE bifunc, domain IHldE_NYESTIGR02198 (HMM): bifunctional protein RfaE, domain I
heptosyltransferase IWaaCYESTIGR02193 (HMM): lipopolysaccharide heptosyltransferase I
heptosyltransferase IIWaaFYESTIGR02195 (HMM): lipopolysaccharide heptosyltransferase II
lipopolysaccharide core biosynthesis protein RfaPWaaPNOPF06293 (HMM): lipopolysaccharide kinase, Kdo/WaaP family
heptosyltransferase IIIWaaQNOTIGR02201 (HMM): putative lipopolysaccharide heptosyltransferase III
lipopolysaccharide core biosynthesis protein RfaYWaaYNOPF06176 (HMM): lipopolysaccharide core biosynthesis protein RfaY
Kdo-III transferaseWaaZNOTIGR04437 (HMM): 3-deoxy-D-manno-oct-2-ulosonate III transferase WaaZ

Parent Properties
GenProp0297lipopolysaccharide biosynthesis

Sibling Properties
GenProp0204KDO(2)-lipid A (Re LPS) biosynthesis and delivery
GenProp0925Leptospira core LPS elements
GenProp0929LPS outer core, E. coli type
GenProp0966E. coli O-antigen biosynthesis
GenProp0994Leptospira interrogans-specific LPS components
GenProp0995Leptospira interrogans LPS associated transketolase