title: Prevalence of the F-type lectin domain.
abstract: F-type lectins are fucolectins with characteristic fucose and calcium-binding sequence motifs and a unique lectin fold (the "F-type" fold). F-type lectins are phylogenetically widespread with selective distribution. Several eukaryotic F-type lectins have been biochemically and structurally characterized, and the F-type lectin domain (FLD) has also been studied in the bacterial proteins, Streptococcus mitis lectinolysin and Streptococcus pneumoniae SP2159. However, there is little knowledge about the extent of occurrence of FLDs and their domain organization, especially, in bacteria. We have now mined the extensive genomic sequence information available in the public databases with sensitive sequence search techniques in order to exhaustively survey prokaryotic and eukaryotic FLDs. We report 437 FLD sequence clusters (clustered at 80% sequence identity) from eukaryotic, eubacterial and viral proteins. Domain architectures are diverse but mostly conserved in closely related organisms, and domain organizations of bacterial FLD-containing proteins are very different from their eukaryotic counterparts, suggesting unique specialization of FLDs to suit different requirements. Several atypical phylogenetic associations hint at lateral transfer. Among eukaryotes, we observe an expansion of FLDs in terms of occurrence and domain organization diversity in the taxa Mollusca, Hemichordata and Branchiostomi, perhaps coinciding with greater emphasis on innate immune strategies in these organisms. The naturally occurring FLDs with diverse domain organizations that we have identified here will be useful for future studies aimed at creating designer molecular platforms for directing desired biological activities to fucosylated glycoconjugates in target niches.
authors.affiliation: Institute of Microbial Technology, Sector 39-A, Chandigarh 160036, India.
authors.forename: Ritika
authors.initials: R
authors.lastname: Bishnoi
authors.affiliation: Institute of Microbial Technology, Sector 39-A, Chandigarh 160036, India.
authors.forename: Indu
authors.initials: I
authors.lastname: Khatri
authors.affiliation: Institute of Microbial Technology, Sector 39-A, Chandigarh 160036, India.
authors.forename: Srikrishna
authors.initials: S
authors.lastname: Subramanian
authors.affiliation: Institute of Microbial Technology, Sector 39-A, Chandigarh 160036, India ramya@imtech.res.in ramya.tnc@gmail.com.
authors.forename: T N C
authors.initials: TN
authors.lastname: Ramya
mesh_terms: D000595:Amino Acid Sequence; D000663:Amphibians / Q000145:classification / Q000235:genetics; D000818:Animals; D001419:Bacteria / Q000737:chemistry / Q000145:classification / Q000235:genetics; D001717:Birds / Q000145:classification / Q000235:genetics; D005643:Fucose / Q000737:chemistry; D015870:Gene Expression; D022761:Gene Transfer, Horizontal; D064175:Lancelets / Q000737:chemistry / Q000145:classification / Q000235:genetics; D037102:Lectins / Q000737:chemistry* / Q000235:genetics; D008322:Mammals / Q000145:classification / Q000235:genetics; D008958:Models, Molecular; D008969:Molecular Sequence Data; D008974:Mollusca / Q000737:chemistry / Q000145:classification / Q000235:genetics; D010802:Phylogeny; D017434:Protein Structure, Tertiary; D012104:Reptiles / Q000145:classification / Q000235:genetics; D016415:Sequence Alignment; D017386:Sequence Homology, Amino Acid
chemical_list: D037102:Lectins; D005643:Fucose
keywords: F-type lectin domain; domain organization; fucose; lateral transfer; phylogenetic distribution