PolysacDB: A comprehensive database of microbial polysaccharide antigens and their antibodies

PolysacDB: A comprehensive database of microbial polysaccharide antigens and their antibodies

Citation: Aithal A, Sharma A, Joshi S, Raghava GPS, Varshney GC (2012) PolysacDB: A Database of Microbial Polysaccharide Antigens and Their Antibodies. PLoS ONE 7(4): e34613. doi:10.1371/journal.pone.0034613

Total Entries - 10
Entry No. - 1 [TOP]

PolysacDB ID	2303
Carbohydrate Name	Lipopolysaccharide (Drugpedia)
Carbohydrate Class	Lipopolysaccharide
Microbe	Shigella flexneri serotype 2a (NCBI Taxonomy) (Drugpedia)
Basic Structure	Chemically, the O-antigen is a polysaccharide chain of variable length, built up by repetitive sequences of tetra- to hexasaccharides. It consists of a basic tetrasaccharide repeating unit consisting of three rhamnoses and one N-acetylglucosamine was common to all S. flexneri strains (except serotype 17): -2)-α-L-Rhap-(1-->2)-α-L-Rhap-(1-->3)-α-L-Rhap-(1-->3)-β-D-GlcpNAc-(1-->. It is characterized by a branching glucose residue linked to the third rhamnose.
BCSDB Structure	9558
Proposed functions	LPS plays an important virulence role based on its antiphagocytic and endotoxic properties
Antigenic Nature used to produce antibodies	Whole cells
Carrier Name	Nil
Conjugation Method	Nil
Antibodies	Mab F22-4
Antibody type and class	IgG1
Assay System	ELISA, protection experiments
Cross-reactivity	This Mab cross-reacted with S. flexneri serotype X, Y, 5a, 5b, 2a, 2b, 1a, 3a
Proposed epitopes	This Mab recognized the trisaccharide α-D-glucose-L-rhamnose-N-acetyl-D-glucosamine
IEDB Epitope	76663
Proposed Utility	N/A
Curator ID	AA + AS
Date of Curation	27-03-2011
References	16424198

Entry No. - 2 [TOP]

PolysacDB ID	2304
Carbohydrate Name	Lipopolysaccharide (Drugpedia)
Carbohydrate Class	Lipopolysaccharide
Microbe	Shigella flexneri serotype 2a (NCBI Taxonomy) (Drugpedia)
Basic Structure	Chemically, the O-antigen is a polysaccharide chain of variable length, built up by repetitive sequences of tetra- to hexasaccharides. It consists of a basic tetrasaccharide repeating unit consisting of three rhamnoses and one N-acetylglucosamine was common to all S. flexneri strains (except serotype 17): -2)-α-L-Rhap-(1-->2)-α-L-Rhap-(1-->3)-α-L-Rhap-(1-->3)-β-D-GlcpNAc-(1-->. It is characterized by a branching glucose residue linked to the third rhamnose.
BCSDB Structure	9558
Proposed functions	LPS plays an important virulence role based on its antiphagocytic and endotoxic properties
Antigenic Nature used to produce antibodies	Whole cells
Carrier Name	Nil
Conjugation Method	Nil
Antibodies	Mab D15-7
Antibody type and class	IgG1
Assay System	ELISA, protection experiments
Cross-reactivity	This Mab cross-reacted with S. flexneri serotype X, Y, 5a, 5b, 2a, 2b, 1a, 3a
Proposed epitopes	This Mab recognized the tetrasaccharide L-rhamnose-α-D-glucose-L-rhamnose-N-acetyl-D-glucosamine
IEDB Epitope	76663
Proposed Utility	This Mab showed invivo protection
Curator ID	AA + AS
Date of Curation	27-03-2011
References	16424198

Entry No. - 3 [TOP]

PolysacDB ID	2305
Carbohydrate Name	Lipopolysaccharide (Drugpedia)
Carbohydrate Class	Lipopolysaccharide
Microbe	Shigella flexneri serotype 2a (NCBI Taxonomy) (Drugpedia)
Basic Structure	Chemically, the O-antigen is a polysaccharide chain of variable length, built up by repetitive sequences of tetra- to hexasaccharides. It consists of a basic tetrasaccharide repeating unit consisting of three rhamnoses and one N-acetylglucosamine was common to all S. flexneri strains (except serotype 17): -2)-α-L-Rhap-(1-->2)-α-L-Rhap-(1-->3)-α-L-Rhap-(1-->3)-β-D-GlcpNAc-(1-->. It is characterized by a branching glucose residue linked to the third rhamnose.
BCSDB Structure	9558
Proposed functions	LPS plays an important virulence role based on its antiphagocytic and endotoxic properties
Antigenic Nature used to produce antibodies	Whole cells
Carrier Name	Nil
Conjugation Method	Nil
Antibodies	Mab A2-1
Antibody type and class	IgG2a
Assay System	ELISA, protection experiments
Cross-reactivity	This Mab cross-reacted with S. flexneri serotype X, Y, 5a, 5b, 2a, 2b, 1a, 3a
Proposed epitopes	This Mab recognized the pentasaccharide L-rhamnose-L-rhamnose-α-D-glucose-L-rhamnose-N-acetyl-D-glucosamine
IEDB Epitope	76663
Proposed Utility	This Mab showed invivo protection
Curator ID	AA + AS
Date of Curation	27-03-2011
References	16424198

Entry No. - 4 [TOP]

PolysacDB ID	2306
Carbohydrate Name	Lipopolysaccharide (Drugpedia)
Carbohydrate Class	Lipopolysaccharide
Microbe	Shigella flexneri serotype 2a (NCBI Taxonomy) (Drugpedia)
Basic Structure	Chemically, the O-antigen is a polysaccharide chain of variable length, built up by repetitive sequences of tetra- to hexasaccharides. It consists of a basic tetrasaccharide repeating unit consisting of three rhamnoses and one N-acetylglucosamine was common to all S. flexneri strains (except serotype 17): -2)-α-L-Rhap-(1-->2)-α-L-Rhap-(1-->3)-α-L-Rhap-(1-->3)-β-D-GlcpNAc-(1-->. It is characterized by a branching glucose residue linked to the third rhamnose.
BCSDB Structure	9558
Proposed functions	LPS plays an important virulence role based on its antiphagocytic and endotoxic properties
Antigenic Nature used to produce antibodies	Whole cells
Carrier Name	Nil
Conjugation Method	Nil
Antibodies	Mab E4-1
Antibody type and class	IgG2b
Assay System	ELISA, protection experiments
Cross-reactivity	This Mab cross-reacted with S. flexneri serotype X, Y, 5a, 5b, 2a, 2b, 1a, 3a
Proposed epitopes	This Mab recognized the tetrasaccharide L-rhamnose-α-D-glucose-L-rhamnose-N-acetyl-D-glucosamine
IEDB Epitope	76663
Proposed Utility	This Mab showed invivo protection
Curator ID	AA + AS
Date of Curation	27-03-2011
References	16424198

Entry No. - 5 [TOP]

PolysacDB ID	2307
Carbohydrate Name	Lipopolysaccharide (Drugpedia)
Carbohydrate Class	Lipopolysaccharide
Microbe	Shigella flexneri serotype 2a (NCBI Taxonomy) (Drugpedia)
Basic Structure	Chemically, the O-antigen is a polysaccharide chain of variable length, built up by repetitive sequences of tetra- to hexasaccharides. It consists of a basic tetrasaccharide repeating unit consisting of three rhamnoses and one N-acetylglucosamine was common to all S. flexneri strains (except serotype 17): -2)-α-L-Rhap-(1-->2)-α-L-Rhap-(1-->3)-α-L-Rhap-(1-->3)-β-D-GlcpNAc-(1-->. It is characterized by a branching glucose residue linked to the third rhamnose.
BCSDB Structure	9558
Proposed functions	LPS plays an important virulence role based on its antiphagocytic and endotoxic properties
Antigenic Nature used to produce antibodies	Whole cells
Carrier Name	Nil
Conjugation Method	Nil
Antibodies	Mab C1-7
Antibody type and class	IgG3
Assay System	ELISA, protection experiments
Cross-reactivity	This Mab cross-reacted with S. flexneri serotype X, Y, 5a, 5b, 2a, 2b, 1a, 3a
Proposed epitopes	This Mab recognized the pentasaccharide L-rhamnose-L-rhamnose-α-D-glucose-L-rhamnose-N-acetyl-D-glucosamine
IEDB Epitope	76663
Proposed Utility	N/A
Curator ID	AA + AS
Date of Curation	27-03-2011
References	16424198

Entry No. - 6 [TOP]

PolysacDB ID	2313
Carbohydrate Name	Lipopolysaccharide (Drugpedia)
Carbohydrate Class	Lipopolysaccharide
Microbe	Shigella flexneri serotype 2a (NCBI Taxonomy) (Drugpedia)
Basic Structure	Chemically, the O-antigen is a polysaccharide chain of variable length, built up by repetitive sequences of tetra- to hexasaccharides. It consists of a basic tetrasaccharide repeating unit consisting of three rhamnoses and one N-acetylglucosamine was common to all S. flexneri strains (except serotype 17): -2)-α-L-Rhap-(1-->2)-α-L-Rhap-(1-->3)-α-L-Rhap-(1-->3)-β-D-GlcpNAc-(1-->. It is characterized by a branching glucose residue linked to the third rhamnose.
BCSDB Structure	9558
Proposed functions	LPS plays an important virulence role based on its antiphagocytic and endotoxic properties
Antigenic Nature used to produce antibodies	Heat killed cells
Carrier Name	Nil
Conjugation Method	Nil
Antibodies	Mab MASF(II:3,4)-1
Antibody type and class	IgG
Assay System	ELISA, agglutination tests
Cross-reactivity	This Mab was specific to 2a LPS
Proposed epitopes	This Mab apparently interact with the α-D-glucose p(1-->4)-α-L-rhamnosyl pIII epitope
IEDB Epitope	76668
Proposed Utility	This Mab can be used for detection and identification of shigella flexneri species
Curator ID	AA + AS
Date of Curation	30-03-2011
References	PMC272864

Entry No. - 7 [TOP]

PolysacDB ID	2316
Carbohydrate Name	Lipopolysaccharide (Drugpedia)
Carbohydrate Class	Lipopolysaccharide
Microbe	Shigella flexneri serotype 2a (NCBI Taxonomy) (Drugpedia)
Basic Structure	Chemically, the O-antigen is a polysaccharide chain of variable length, built up by repetitive sequences of tetra- to hexasaccharides. It consists of a basic tetrasaccharide repeating unit consisting of three rhamnoses and one N-acetylglucosamine was common to all S. flexneri strains (except serotype 17): -2)-α-L-Rhap-(1-->2)-α-L-Rhap-(1-->3)-α-L-Rhap-(1-->3)-β-D-GlcpNAc-(1-->. It is characterized by a branching glucose residue linked to the third rhamnose.
BCSDB Structure	9558
Proposed functions	LPS plays an important virulence role based on its antiphagocytic and endotoxic properties
Antigenic Nature used to produce antibodies	Heat killed cells
Carrier Name	Nil
Conjugation Method	Nil
Antibodies	Mab MASF(II:3,4)-2
Antibody type and class	IgG
Assay System	ELISA, agglutination tests
Cross-reactivity	This Mab was specific to 2a LPS
Proposed epitopes	This Mab apparently interact with the α-D-glucose p(1-->4)-α-L-rhamnosyl pIII epitope
IEDB Epitope	76668
Proposed Utility	This Mab can be used for detection and identification of shigella flexneri species
Curator ID	AA + AS
Date of Curation	31-03-2011
References	PMC272864

Entry No. - 8 [TOP]

PolysacDB ID	2336
Carbohydrate Name	Lipopolysaccharide (Drugpedia)
Carbohydrate Class	Lipopolysaccharide
Microbe	Shigella flexneri serotype 2a (NCBI Taxonomy) (Drugpedia)
Basic Structure	Chemically, the O-antigen is a polysaccharide chain of variable length, built up by repetitive sequences of tetra- to hexasaccharides. It consists of a basic tetrasaccharide repeating unit consisting of three rhamnoses and one N-acetylglucosamine was common to all S. flexneri strains (except serotype 17): -2)-α-L-Rhap-(1-->2)-α-L-Rhap-(1-->3)-α-L-Rhap-(1-->3)-β-D-GlcpNAc-(1-->. It is characterized by a branching glucose residue linked to the third rhamnose.
BCSDB Structure	9558
Proposed functions	LPS plays an important virulence role based on its antiphagocytic and endotoxic properties
Antigenic Nature used to produce antibodies	Heat killed cells
Carrier Name	Nil
Conjugation Method	Nil
Antibodies	Antisera raised in humans
Antibody type and class	IgA
Assay System	ELISA
Cross-reactivity	This antisera was mostly cross-reactive with serotype 2b, which shares the type II antigen, and serotypes 1a, 5a, and Y, which share 4 or 3,4 group antigen, with 2a
Proposed epitopes	N/A
IEDB Epitope	76663
Proposed Utility	These results show that either immunization or challenge with the 2a serotype induces cross-reactive antibodies which recognize similar subsets of heterologous serotypes, and suggest that it may be possible to design multivalent vaccines against S. flexneri
Curator ID	AA + AS
Date of Curation	06-04-2011
References	8879103

Entry No. - 9 [TOP]

PolysacDB ID	2337
Carbohydrate Name	Lipopolysaccharide (Drugpedia)
Carbohydrate Class	Lipopolysaccharide
Microbe	Shigella flexneri serotype 2a (NCBI Taxonomy) (Drugpedia)
Basic Structure	Chemically, the O-antigen is a polysaccharide chain of variable length, built up by repetitive sequences of tetra- to hexasaccharides. It consists of a basic tetrasaccharide repeating unit consisting of three rhamnoses and one N-acetylglucosamine was common to all S. flexneri strains (except serotype 17): -2)-α-L-Rhap-(1-->2)-α-L-Rhap-(1-->3)-α-L-Rhap-(1-->3)-β-D-GlcpNAc-(1-->. It is characterized by a branching glucose residue linked to the third rhamnose.
BCSDB Structure	9558
Proposed functions	LPS plays an important virulence role based on its antiphagocytic and endotoxic properties
Antigenic Nature used to produce antibodies	Heat killed cells
Carrier Name	Nil
Conjugation Method	Nil
Antibodies	Antisera raised in guinea pigs
Antibody type and class	IgA and IgG
Assay System	ELISA
Cross-reactivity	This antisera cross-reacted with serotypes 1a, 5a, and Y, but not 2b
Proposed epitopes	N/A
IEDB Epitope	76663
Proposed Utility	These results show that either immunization or challenge with the 2a serotype induces cross-reactive antibodies which recognize similar subsets of heterologous serotypes, and suggest that it may be possible to design multivalent vaccines against S. flexneri
Curator ID	AA + AS
Date of Curation	06-04-2011
References	8879103

Entry No. - 10 [TOP]

PolysacDB ID	2338
Carbohydrate Name	Lipopolysaccharide (Drugpedia)
Carbohydrate Class	Lipopolysaccharide
Microbe	Shigella flexneri serotype 2a (NCBI Taxonomy) (Drugpedia)
Basic Structure	Chemically, the O-antigen is a polysaccharide chain of variable length, built up by repetitive sequences of tetra- to hexasaccharides. It consists of a basic tetrasaccharide repeating unit consisting of three rhamnoses and one N-acetylglucosamine was common to all S. flexneri strains (except serotype 17): -2)-α-L-Rhap-(1-->2)-α-L-Rhap-(1-->3)-α-L-Rhap-(1-->3)-β-D-GlcpNAc-(1-->. It is characterized by a branching glucose residue linked to the third rhamnose.
BCSDB Structure	9558
Proposed functions	LPS plays an important virulence role based on its antiphagocytic and endotoxic properties
Antigenic Nature used to produce antibodies	Heat killed cells
Carrier Name	Nil
Conjugation Method	Nil
Antibodies	Antisera raised in monkeys
Antibody type and class	IgG
Assay System	ELISA
Cross-reactivity	The majority of sera from challenged monkeys showed cross-reactivity with almost all flexneri serotypes tested, with 1a, 2b, and Y being recognized most often
Proposed epitopes	N/A
IEDB Epitope	76663
Proposed Utility	These results show that either immunization or challenge with the 2a serotype induces cross-reactive antibodies which recognize similar subsets of heterologous serotypes, and suggest that it may be possible to design multivalent vaccines against S. flexneri
Curator ID	AA + AS
Date of Curation	06-04-2011
References	8879103

Department of Computational Biology, Indraprastha Institute of Information Technology, Sec - 39A, New Delhi, India - 110020